Supplementary Table S1 . Congruence between ChIP

Supplementary Table S1 . Congruence between ChIP-chip data and in vitro EMSA results

Target gene SCO0033

Promoter region (in vitro) 1

SCO0034 SCO1196

2

SCO1393

3

SCO1394 SCO1565 (glpQ1) SCO1845 (pitH2) SCO1906 SCO1968 (glpQ2) SCO2068 (phoD)

4 5 6 7 8

SCO2262 SCO2286 (phoA) SCO2465 (hrdA)

9 10

SCO2878

12

SCO3790 SCO4142 (pstS) SCO4228 (phoU) SCO4229 (phoR)

13

SCO4261

16

SCO4878

17

11

14 15

Reference Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) SantosBeneit et al (2009a) Sola-Landa et al (2008) Sola-Landa et al (2008) SantosBeneit et al (2009a) Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008)

In vivo detection by PhoP-ChIP yes

Promoter type divergent divergent

no yes

divergent divergent

yes yes yes yes yes no yes no yes yes yes yes

divergent

yes

divergent

yes yes

divergent

SCO4879 SCO5447

18

SCO6169

19

SCO6170 SCO7697

20

SCO4159 (glnR)

21

SCO2198 (glnA)

22

SCO2210 (glnII)

23

SCO5583 (amtB)

24

SCO4425 (afsS)

25

SCO1478 (rpoZ) Total

26 26

Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) Sola-Landa et al (2008) RodriguezGarcia et al (2009) RodriguezGarcia et al (2009) RodriguezGarcia et al (2009) RodriguezGarcia et al (2009) SantosBeneit et al (2009b) SantosBeneit et al (2011)

divergent yes yes

divergent divergent

no yes yes yes no yes no 20

PSWM based on the above 26 promoter regions (used to search the genome and generating the sequence motif in Figure 2 of the manuscript)

A 1 0 0 1 20 3 1 0 3 0 0 3 0 2 4 23 0 1 C 0 0 1 23 1 19 23 13 11 14 10 4 1 5 20 0 15 12 G 25 6 0 1 3 2 2 4 7 9 5 19 13 0 0 3 4 11 T 0 20 25 1 2 2 0 9 5 3 11 0 12 19 2 0 7 2 \

References Rodríguez-García, A., Sola-Landa, A., Apel, K., Santos-Beneit, F., Martín, J.F. (2009) Phosphate control over nitrogen metabolism in Streptomyces coelicolor: direct and indirect negative control of glnR, glnA, glnII and amtB expression by the response regulator PhoP. Nucleic Acids Res., 37, 3230– 3242. Santos-Beneit, F., Rodriguez-Garcia, A., Apel, A.K. and Martin, J.F. (2009a) Phosphate and carbon source regulation of two PhoP-dependent glycerophosphodiester phosphodiesterase genes of Streptomyces coelicolor. Microbiology, 155, 1800-1811. Santos-Beneit, F., Rodriguez-Garcia, A., Sola-Landa, A. and Martin, J.F. (2009b) Cross-talk between two global regulators in Streptomyces: PhoP and AfsR interact in the control of afsS, pstS and phoRP transcription. Mol Microbiol, 72, 53-68. Santos-Beneit, F., Rodriguez-Garcia, A. and Martin, J.F. (2011) Complex transcriptional control of the antibiotic regulator afsS in Streptomyces: PhoP and AfsR are overlapping, competitive activators. J. Bacteriol., 193, 2242-2251. Sola-Landa, A., Rodriguez-Garcia, A., Apel, A.K. and Martin, J.F. (2008) Target genes and structure of the direct repeats in the DNA-binding sequences of the response regulator PhoP in Streptomyces coelicolor. Nucleic Acids Res, 36, 1358-1368.

Table S2: Genomic regions identified as being significantly enriched in the PhoP-ChIP experiments and presence of putative ‘PhoP boxes’. These regions (many of which include more than one gene and encompass several kb) contain statistically significant ChIP-enriched probes and include 1 kb either side of the genes (since this reflected the average DNA fragment size in the chromatin preparations). The PSWM (Table S1) was used as input to the RSAT (http://rsat.ulb.ac.be/) matrix-scan tool (using default parameters and the S. coelicolor genome as a background model) to find all matching PhoP boxes. Matching motifs that are within each genomic region are indicated in this table. Nucleotide co-ordinates and sequences are from Accession No. AL645882.

Regions significantly enriched in PhoP-ChIP experiments, with additional 1 kb flanking either side of genes) (start coordinate in genome, end coordinate in genome) SCO0033-SCO0034 (25527 - 30519)

SCO0079-SCO0080 (65688 - 69887) SCO0096-SCO0103 (78839 - 87643) SCO0105-SCO0110 (86907 - 92790) SCO0117-SCO0119 (93989 - 99281) SCO0123-SCO0124 (100656 - 105989) SCO0166 (155338 - 158141) SCO0214-SCO0216 (203387 - 211181)

SCO0222-SCO0225 (213913 - 218268)

SCO0233-SCO0234 (220699 - 224288) SCO0244 (231508 - 234518) SCO0256-SCO0257 (244986 - 248869)

SCO0290-SCO0292 (281491 - 286598)

Location of a putative PHO box in region (start of putative PHO box, end of putative PHO box, box sequence, DNA strand) (25636:25653 -1 GTTCTGCGGCCGGTCATC), (29279:29296 -1 GTTCAGCGCCCATTTGTC), (28895:28912 -1 GTTCACCCTCTCCTCATC) (69726:69743 +1 GTTCAACGAGTGATCACG), (69604:69621 +1 GGTCACCTGCCCGCCGTC) (79985:80002 +1 GTTCTCCCGGCAGATACG) (90814:90831 +1 GTTCACCTCCCTTTGAGG) (96576:96593 +1 GGTCACAGCGTGTCCGTG), (94918:94935 +1 GTTTAGATTGGGGTCATA)

(204458:204475 +1 GGTCGCATCGTGTACACC), (209971:209988 -1 GTTCACGGTGCGGTCCTG), (209182:209199 +1 GGTCCGCTGCTGGACACC), (206629:206646 -1 GTGCGCCCACCGGTCACG) (213990:214007 +1 GTTGATCCCGCACTCATC), (214911:214928 -1 GTTCGGATCTCGGTCATG) (221380:221397 +1 GGCCACACGGTGTTCACG) (246483:246500 -1 GGTCAGCCCGCGTACGCC), (246273:246290 -1 GGTCACCCGGGCGATACC) (281480:281497 -1


SCO0433-SCO0434 (452370 - 457195) SCO0534-SCO0535 (565007 - 570044) SCO0551-SCO0552 (589981 - 594022)

SCO0639-SCO0643 (679496 - 686095) SCO0688-SCO0690 (728117 - 732976) SCO0705-SCO0707 (743945 - 749387) SCO0722-SCO0725 (765591 - 771065) SCO0751-SCO0754 (790981 - 798723) SCO0772 (820295 - 822873) SCO0778-SCO0780 (825361 - 829218)

SCO0812-SCO0813 (858963 - 864281) SCO0881 (926534 - 929499) SCO0938 (982971 - 986377)

SCO0941-SCO0944 (985722 - 991210)

SCO0961-SCO0963 (1013030 - 1018394) SCO0966-SCO0970 (1017944 - 1023813)

SCO1007-SCO1010 (1060871 - 1067294)

GTTCACCTACGAGTCGGG), (282158:282175 +1 GGTCCCCTCCCGTATACG) (317553:317570 -1 GTCCTGCTCCTGGTCACG) (426059:426076 +1 GGTCAACTCCCGTTCACC), (424491:424508 +1 GGTCAGCCTCCGGTCGGG) (454710:454727 +1 TTCCACCTCGTCTTCACC) (567287:567304 -1 GTCCACCTCGTGGACGGC) (592410:592427 +1 GTCCACCGTCTGGTCCTC), (590196:590213 -1 GTTCGACGCCTGGTCGGC) (680238:680255 -1 CTTCAGCTCCGCGTCACG) (732442:732459 +1 GGTTTCCCGGCCGTCACC)

(796855:796872 +1 GTTCTCCCTCCGGCCGTG) (825604:825621 -1 GGTCTCCCGCCGGTCGTA), (827387:827404 -1 GTTCACCCCGGCGGCACG), (825688:825705 -1 GGTGATCTGCTGGTAGTC)

(986234:986251 -1 GTTCACCCCGCCATCATG), (983775:983792 +1 GGTCACCGGTTCGTCGGC) (986234:986251 -1 GTTCACCCCGCCATCATG), (987036:987053 +1 GTTGACCTTCTCGTAGGC), (989739:989756 +1 GTCCACCCCCTGGCCAGG) (1023559:1023576 +1 GGTCACCGGCTGGCCGGG), (1020681:1020698 +1 GTTCCTCGGGTGGTCACA), (1022076:1022093 +1 GTTCAGATGGCGGTCGTG) (1066960:1066977 +1 GTCCGCCTCCTGGTCGGC), (1062608:1062625 +1 GTCCACCCCGCCTTCGTC), (1061393:1061410 -1 GGTCTTGCTGGGGTCATG), (1061661:1061678 +1

SCO1011-SCO1013 (1065337 - 1070633)

SCO1021-SCO1025 (1076009 - 1085137)

SCO1052-SCO1053 (1107110 - 1110432) SCO1056-SCO1057 (1112337 - 1116573)

SCO1060-SCO1062 (1116870 - 1124006) SCO1075-SCO1078 (1134646 - 1140391) SCO1091-SCO1092 (1149733 - 1152748) SCO1127-SCO1129 (1182673 - 1187480) SCO1137-SCO1138 (1193739 - 1198779)

SCO1150-SCO1155 (1209322 - 1217478)

SCO1160 (1217590 - 1222178) SCO1164-SCO1167 (1223211 - 1229969) SCO1182 (1244771 - 1251951)

SCO1184-SCO1185 (1251179 - 1259141) SCO1188-SCO1192 (1259854 - 1266148) SCO1207-SCO1210 (1277746 - 1283540) SCO1214-SCO1215 (1284457 - 1288626)


SCO1296-SCO1299 (1369791 - 1375549)

CTTCACCTCCGCGTCGCG) (1066960:1066977 +1 GTCCGCCTCCTGGTCGGC), (1068307:1068324 +1 GTCCAGCCGCCGTCCAGG) (1076842:1076859 +1 GGTCAACCGCCGGTAACC), (1078127:1078144 +1 GTTGTCCTGCGGGTCGCC) (1112632:1112649 +1 GGTCAGCTCGCGTCCGTC), (1112414:1112431 -1 GTTCTACCTCTCCTCGCG) (1119269:1119286 -1 GTTCAACCCGCAGTCCGG) (1151445:1151462 +1 GTTCACCGGGAGTTCGGC) (1184176:1184193 +1 GTCAACCTGCTGGCCACG) (1196514:1196531 -1 GTCAGCCCGCCGGTCACC), (1194604:1194621 -1 GTCCACCGCGCGTTCGTC), (1196436:1196453 -1 GTCAGCCCGCCGGTCACC) (1214243:1214260 -1 GTGCACCGGGCGGTCACC), (1211872:1211889 -1 GTTCACCGAGGCGTCGCC)

(1250519:1250536 +1 GTTCCCGCGCTCGTCACC), (1248229:1248246 -1 GTTCCCGCCGTGGTCAGT)

(1286705:1286722 +1 GATCTGCCGCCGTTCACG), (1286635:1286652 +1 GTTCAACCGCGCTCAACC) (1292909:1292926 -1 GGTCGGCCGGTGCTCATC) (1344790:1344807 -1 GGTCACCGGTGGGTGACC), (1346384:1346401 +1 GTTCACCCTCTGGCCGCT), (1344972:1344989 +1 GGCCACCCCCGGTTCGCC) (1370158:1370175 -1 GTTCACCCTTCGGCCATG), (1373817:1373834 -1 GGTGACCCCGGGTTCGTG), (1372858:1372875 +1 GGTCACGCCCCGCACACC),

(1372829:1372846 +1 GGTCACGCCCCGCACACC) SCO1304-SCO1305 (1379724 - 1383538) SCO1325-SCO1331 (1399584 - 1409480)

SCO1333 (1409027 - 1411995) SCO1360-SCO1361 (1436760 - 1440819) SCO1374-SCO1377 (1450745 - 1455712) SCO1384-SCO1385 (1461078 - 1464926)

SCO1389-SCO1390 (1466874 - 1475740)

SCO1391-SCO1394 (1473827 - 1483173) SCO1397-SCO1400 (1482776 - 1487734)

SCO1402-SCO1403 (1486176 - 1491969)

SCO1404-SCO1405 (1490016 - 1496871) SCO1407 (1496056 - 1502717)

SCO1430-SCO1434 (1525117 - 1532607)

SCO1438-SCO1441 (1533876 - 1538885) SCO1463-SCO1464 (1559350 - 1563157)

SCO1487-SCO1489 (1589407 - 1593884) SCO1499 (1599714 - 1603462)

SCO1517-SCO1521 (1621951 - 1627785) SCO1527-SCO1528 (1630173 - 1635304)

SCO1537-SCO1539 (1644999 - 1650206) SCO1544-SCO1545 (1651664 - 1655167)

(1403038:1403055 -1 GATCAACGCCTCGTCATC), (1400248:1400265 +1 GTTCATCGCCTGTTCGCC)

(1451431:1451448 -1 GTTCACCGAGCGGTCGGC) (1461598:1461615 +1 CTTCAGCTCCTGCTCACC), (1463899:1463916 +1 GTTCGCCGGCTGCTCGTC) (1470034:1470051 -1 GGTGAACTATGGTTAAGG), (1466897:1466914 +1 GATCACCGTGTGTTCGCG) (1479727:1479744 -1 GTTCAACTGCCGTTCACC) (1487250:1487267 +1 GTTCTCCTTGCGGCCGCG), (1483665:1483682 -1 GTTCACGCGACGTTCACG) (1488175:1488192 -1 GGTCTCCCTCCAGCCATC), (1487250:1487267 +1 GTTCTCCTTGCGGCCGCG) (1497277:1497294 -1 GTCCAGCTCCTGTACACC), (1497025:1497042 +1 TTTCACACCGGCTTCACG) (1530455:1530472 +1 GTCGACCCCGCCTTCATG), (1529526:1529543 +1 GGTCACCGTCGGGTCGCG), (1526843:1526860 +1 GGTCACACCCGGGTCACG), (1528089:1528106 +1 GTTCGACCTGGATCCAGG) (1561454:1561471 +1 GTTCACTTTCTGTTCCTC), (1561387:1561404 +1 GTTCACACTCTGGATACG) (1601298:1601315 +1 GTTCAGCGCCCAGTCGGG), (1601643:1601660 +1 GGTCACCTGCTCGCCGTT) (1631241:1631258 -1 GTCCAGCGGGTCGTCACG), (1633692:1633709 -1 CTTCACGTGCCGTCCACG)

SCO1547-SCO1551 (1654113 - 1661625)

SCO1557 (1668056 - 1670883) SCO1566-SCO1567 (1675402 - 1679681)

SCO1583 (1691635 - 1696109)


SCO1639-SCO1640 (1751701 - 1756251)

SCO1643-SCO1646 (1756649 - 1761117)

SCO1648-SCO1649 (1761040 - 1765357)

SCO1654-SCO1655 (1768156 - 1772550)

SCO1677 (1796321 - 1798695) SCO1686-SCO1689 (1805297 - 1810400)

SCO1695 (1815646 - 1818248) SCO1707-SCO1711 (1826151 - 1835164)

(1656191:1656208 -1 GGTCACCCGGGAGCCACC), (1655502:1655519 -1 GTCCACCTGGTCTCCACG) (1676078:1676095 -1 GGTCTCCCGCTCGTCATG), (1678453:1678470 -1 GGTCTGCTCGTCTCCATG), (1675822:1675839 -1 GGTCACCGCGGGGCCAGC) (1694512:1694529 -1 GGCCGCCTCGCGGTCACC), (1694149:1694166 -1 GTCCCCGCCCTGGTCACC) (1708843:1708860 -1 GTCCACCGCGTCGTCGTC) (1749562:1749579 +1 GTTCACAAGGCGTCCACG), (1751625:1751642 +1 GTTCGCCTTGCGGTAGTC), (1748005:1748022 +1 GGTCACGTCGTCGTAGCC) (1756050:1756067 -1 GTTCACCGTCGGGCCGCT), (1752221:1752238 -1 GGTCACCTGGGGTCCATG), (1752643:1752660 +1 GTTCAGCTCCTGCTTGTC) (1759098:1759115 -1 GGTGACCGGCGGGCCACC), (1758011:1758028 +1 GTTCTCCGGGCTGTCACC), (1760293:1760310 +1 GCTCACCCGCCGGCCAGG), (1759943:1759960 +1 GTTCTCCTCGAGTACATC) (1762393:1762410 +1 GTTCTCCTCGGATTCGGC), (1763779:1763796 +1 GTTCATGTCGTCGTCGTG), (1764352:1764369 -1 AGTCACATTTTGGTCACT), (1763440:1763457 +1 GTTCACCCTGAGTTTGCG) (1771148:1771165 +1 GTTGATCTTCCGGACGCG), (1771407:1771424 -1 GTTCAACGTCTCGAAAGA), (1771026:1771043 -1 GTTCAAGCTGTCCACACC) (1805389:1805406 +1 GTTCTCGTCCTGGTCCTC), (1808554:1808571 +1 GGCCACGTCCTGGCCACC) (1831874:1831891 -1

SCO1739-SCO1741 (1854987 - 1862979)

SCO1749 (1868279 - 1870719) SCO1753-SCO1754 (1873625 - 1876975) SCO1760-SCO1765 (1880032 - 1886478) SCO1776-SCO1777 (1895671 - 1901708) SCO1782-SCO1785 (1906225 - 1910674)

SCO1791-SCO1793 (1914097 - 1924698)

SCO1823-SCO1826 (1953009 - 1958987) SCO1835-SCO1837 (1963648 - 1967254)

SCO1841 (1968468 - 1971052) SCO1844-SCO1845 (1971995 - 1976214)


SCO1875 (2006938 - 2010392) SCO1879-SCO1881 (2010647 - 2016061)

SCO1887-SCO1888 (2020058 - 2024845)

GTCAACGTCTTGTTAACG), (1827357:1827374 -1 GGTCCCGTGGTCGTCATG) (1859349:1859366 -1 GTCCGCCCCCTGTTCGGC), (1859822:1859839 +1 CTCCAGCTGCTGTTCATC), (1862121:1862138 +1 GGTCACACGGCCTTCACC), (1861118:1861135 +1 GGTCACCGTCCCGTCGTG) (1876046:1876063 +1 GGTCACATTTTCGTCACA) (1898522:1898539 +1 GGTCACCGTTTCCTCACG) (1906700:1906717 +1 GGTCACCGGCCGGCCGTC), (1908251:1908268 +1 GTTCCCCGTGGGGTCGCG) (1923479:1923496 -1 GTTCAGCCCGCGGTACTG), (1917912:1917929 -1 GGTGAACTATGGTTAAGG) (1964855:1964872 +1 ATTCACTCACCGTTCAGT), (1966728:1966745 -1 GTTCACCTGGTGGCGGCG) (1975287:1975304 +1 GTCAGCCTCGTGGTCACG), (1972361:1972378 +1 GTTCAGCGCGTGTTCGCG), (1973873:1973890 +1 GTTCATCTTCCGTTCACC) (1984644:1984661 +1 GTTCCCCGGCTCGTCATT) (1998782:1998799 -1 GGTGATCCCGCGTTCGCG), (2000694:2000711 -1 GGTCAACTCGGCGTCGCC), (2000868:2000885 +1 GTCTACCCGCTGCTCACC) (2014998:2015015 -1 ATTCCCCTGGCGTTCGCC), (2014827:2014844 +1 GTTCACGGCGTGGTTGGC), (2011159:2011176 +1 GTTCTTCTTCTCGTAGTC), (2011611:2011628 +1 GGTCAAGTACCGGTCGTG) (2022112:2022129 +1 GTTCAGCCGGCGTACGGG), (2021997:2022014 +1 GTTCTCCGTTCAGTTACG),

SCO1899-SCO1903 (2032731 - 2039229)

SCO1906-SCO1907 (2039979 - 2045163)

SCO1909-SCO1913 (2045252 - 2050380) SCO1925 (2055956 - 2059377) SCO1932-SCO1934 (2062713 - 2067411) SCO1967-SCO1968 (2106239 - 2110278) SCO1978 (2116630 - 2118905) SCO1983-SCO1984 (2119551 - 2123775)

SCO1985-SCO1986 (2121775 - 2126581) SCO1992-SCO1994 (2128270 - 2131952) SCO2004-SCO2006 (2143639 - 2149404) SCO2007-SCO2010 (2147401 - 2154399) SCO2013-SCO2015 (2154123 - 2160798) SCO2016-SCO2018 (2158817 - 2166253) SCO2062-SCO2063 (2208967 - 2212570) SCO2064-SCO2065 (2210637 - 2217719) SCO2089-SCO2091 (2242269 - 2248578) SCO2125-SCO2126 (2284077 - 2287936) SCO2131 (2289703 - 2293499) SCO2146-SCO2148 (2306076 - 2312684)

SCO2155-SCO2157 (2315758 - 2322159)

SCO2166-SCO2169 (2329312 - 2334749)

(2021237:2021254 -1 GTCGACCTGCTCTACACC), (2020914:2020931 -1 ATCTACCTGGTCTTCACC) (2037917:2037934 -1 GATCACCTCGTCGTCGCC), (2038142:2038159 -1 GGTCATCTCCCACTCGCC), (2034686:2034703 +1 GTACGCCCCGTCGTCACC) (2044880:2044897 -1 GTTCGCCGCCCCGTCGCC), (2044265:2044282 +1 GTTCATCTCCCCGACGGG), (2041848:2041865 +1 GGTCATCCCCTCCTCGCC), (2042546:2042563 -1 GTTCAACTCCCGTTCAGG)

(2108317:2108334 +1 ATTCAGCCTGTGGCCACT) (2121352:2121369 -1 GTTCAGAGCTTGTTCAGA), (2123248:2123265 -1 GTCCTCGCCCTGGTCATG), (2121341:2121358 -1 GTTCAGAGCCTGTTCGGC), (2120370:2120387 +1 GTTCGAGCACCGTTCGCC) (2123248:2123265 -1 GTCCTCGCCCTGGTCATG) (2129256:2129273 +1 GGTCCACGCCCGGTCAGC) (2144831:2144848 -1 GGTCCCCCTCCGGCCAGG)

(2246551:2246568 -1 GTTCACCCGCGAGCAGCT) (2284653:2284670 -1 GTTCACCTCGGGTTCGAG) (2312550:2312567 -1 GTCGCCCTGCTGTTCACG), (2306413:2306430 -1 GTTCAGCTCCCGTCCGCC), (2309144:2309161 +1 GGTCACCCGGCCGTCGCG) (2320664:2320681 -1 GGTCTCCCCGTCGACATA), (2318012:2318029 -1 GTTCGCCTACTCGCCGCT)

SCO2175-SCO2176 (2337274 - 2341510) SCO2183 (2347740 - 2352439) SCO2184-SCO2187 (2350510 - 2355585) SCO2194-SCO2198 (2360907 - 2367314)

SCO2199-SCO2206 (2365476 - 2372857)

SCO2208-SCO2213 (2371674 - 2378257)

SCO2226-SCO2228 (2387900 - 2397807) SCO2241 (2409423 - 2412784)


SCO2318-SCO2319 (2487558 - 2491921)

SCO2323 (2492924 - 2496063) SCO2328-SCO2329 (2497914 - 2501535) SCO2335-SCO2336 (2503417 - 2509294)

(2348793:2348810 -1 GGTCTCCTCGGGGTCGCG) (2364791:2364808 +1 GGTCACGCCCGAGAAATC), (2362998:2363015 +1 GGTCACGCCCTGGTAACA), (2365834:2365851 -1 GTTCACCGTCGGGTTGGT) (2371974:2371991 -1 GTTCTCCTGCGCGACATG), (2368195:2368212 -1 GGTCAACCGCCGGTCGCT), (2365834:2365851 -1 GTTCACCGTCGGGTTGGT) (2371974:2371991 -1 GTTCTCCTGCGCGACATG), (2374188:2374205 +1 GTTCACCTACGGGCAACG), (2374177:2374194 +1 GGTAACACGGGGTTCACC), (2377393:2377410 -1 GGTCACCTCCCAGCCGCG), (2376948:2376965 -1 GTTCTCCGCCCCGTCGCG) (2395821:2395838 -1 GTTCAACTTCCAGTACCT) (2409540:2409557 +1 GTCCACGTTCGGGTCGTC), (2411856:2411873 -1 GTCCGCCTTGCCGTCATC), (2411280:2411297 -1 GTTCACCCACTGGTTGGT), (2410479:2410496 +1 GTACGCCTGTGGTTCACG) (2413473:2413490 +1 GTTCTCCACCTGGTAGCG)

(2481617:2481634 -1 GTCGACCGGGCGGTCACC), (2484696:2484713 -1 GTTCACCTTGCGGTTGAT), (2485167:2485184 +1 GTTCCCAAGGTGTTCATC) (2487898:2487915 +1 GTTCAGCGCCTGCTCGGC), (2487827:2487844 +1 GGTCACGCGGCGTCCACC), (2490477:2490494 +1 GTGCATCTGCTGGTCGCG) (2494181:2494198 +1 ATCCGCCTCCTGTTCACG) (2504617:2504634 -1 CTCCACCCGCTCTTCACC), (2505883:2505900 -1 GTTCTCCTCTTCGTCCCG)

SCO2347-SCO2348 (2515812 - 2519537) SCO2350-SCO2351 (2519564 - 2522838)

SCO2362 (2528534 - 2533053)

SCO2367-SCO2371 (2535613 - 2543332) SCO2397-SCO2401 (2567888 - 2574570) SCO2404-SCO2405 (2574786 - 2579505) SCO2416-SCO2418 (2588168 - 2593294) SCO2424 (2596556 - 2600157)




SCO2479-SCO2482 (2669321 - 2673984)

SCO2493-SCO2498 (2682469 - 2694250)

(2515863:2515880 -1 GTTCTCCCACTGGTACTG) (2521648:2521665 +1 GTTCCTCCCCTGGTCGGC), (2522183:2522200 +1 GTCCACCCGCCAGTCGTT) (2532118:2532135 +1 GGTCGCCCGGCGTTCAGT), (2529767:2529784 +1 GTTCACGTCGTGGATGCC), (2532986:2533003 -1 GTCCCCCTGCTGTTCGTC), (2531915:2531932 +1 GGTCAGCGCCTCGTCGCC) (2536254:2536271 -1 GTCGACCTCGCGCTCACC) (2570308:2570325 -1 CTTCACCCGGCGGTCGTC) (2575872:2575889 -1 GTTCTCCTCGCTGCCACC) (2592288:2592305 +1 GGTCATCCGAGGGTCACC) (2597281:2597298 +1 GGTGAACTGGCGGTCAGC), (2599281:2599298 -1 GTTCAGCGCGGGTTCGGC) (2602769:2602786 -1 ATTCACGCGCCGGCCACC) (2620106:2620123 +1 GTTCACCTGGGGGCTGTT), (2621969:2621986 +1 GGTCTGACCGCGGTCACC) (2635368:2635385 -1 GGTCACCGTGCGGCCGTG) (2644900:2644917 +1 GTTCATCGAGCCTCCAGC), (2644889:2644906 +1 ATTCGGGCGCTGTTCATC), (2639073:2639090 +1 GTCCAGCGGCTGTTCGCC) (2654410:2654427 -1 GGTAACCCCTCGGTCACG) (2661740:2661757 -1 GTTCGCCGCCCGCTCACA), (2662354:2662371 -1 GGTCACGTCGTGCTCGTC) (2669317:2669334 -1 GGTCACCGGCGGTACGCG), (2673889:2673906 +1 GGTCTCACGCTGTTCACC), (2670674:2670691 +1 GGTGACCTGGTGGTCACG) (2691228:2691245 -1 GGTGACCTGCCCGTCACG), (2687708:2687725 +1 GTCCACGTGTGCGTCATG)

SCO2504-SCO2505 (2701461 - 2705990) SCO2526 (2723049 - 2725603) SCO2532 (2729432 - 2732511) SCO2537-SCO2538 (2734261 - 2737540) SCO2557-SCO2558 (2755986 - 2759462) SCO2561-SCO2563 (2761403 - 2767960) SCO2566-SCO2567 (2767600 - 2773445) SCO2569-SCO2570 (2772654 - 2776367) SCO2579-SCO2582 (2784946 - 2789498) SCO2589-SCO2590 (2796141 - 2803989) SCO2593-SCO2594 (2806802 - 2811599)

SCO2603-SCO2605 (2822656 - 2828148)

SCO2608-SCO2612 (2829653 - 2837660) SCO2625-SCO2628 (2850911 - 2857074) SCO2631-SCO2632 (2856300 - 2860937) SCO2640 (2869836 - 2872858) SCO2650 (2881600 - 2883911) SCO2681-SCO2682 (2919476 - 2925292)

SCO2685-SCO2687 (2926742 - 2932792) SCO2692 (2935812 - 2939692)

SCO2724-SCO2725 (2969454 - 2974086) SCO2736-SCO2740 (2981769 - 2988528)


SCO2790-SCO2792 (3044619 - 3049331)

(2755999:2756016 +1 CTTCAGCCTGCGTTCACT) (2768597:2768614 +1 GGTCAGCCCTTGGGCACC)

(2803107:2803124 +1 GATCACATCTTCTTCACC) (2807789:2807806 +1 TTTCATCTGTTGTCAACT), (2811509:2811526 -1 GTGCACGTCCTGGACACG) (2826842:2826859 -1 GGTCTCCCAGCGGTCGGC), (2824624:2824641 -1 GTTCGTCTTGCAGTCGGC), (2823026:2823043 -1 GTTCGCCTGCTCGTAACC) (2832137:2832154 +1 GTTCAGCTCGTACTCGGC) (2854723:2854740 +1 GTTCGCCTCCGTTTCACT) (2859831:2859848 +1 GTTCACCCACTGGCTGCA)

(2923875:2923892 +1 GTTGACCTGCGGGTAGCT), (2919893:2919910 +1 GTTCAACGACCAGTCCTG), (2919582:2919599 +1 GGTCAGCCGCTGCTCGTC) (2938093:2938110 -1 GTTCGCGCCCGGTCCAGG), (2938005:2938022 -1 GTTCACGGGGTGTTCGCG), (2938817:2938834 -1 GGTCGTCTCCGGGTCGTC), (2936156:2936173 +1 GTTCGTCCACCCTCCAGG) (2984787:2984804 +1 GTTCAACGTCCCGGCACC), (2984407:2984424 -1 GGTCACCCGGGCGAAACG) (3013280:3013297 +1 GGTCAGCCCGTGCTCGCC) (3037708:3037725 -1 GTTCAGCCCGTAGCCGTG), (3034876:3034893 +1 GTACACGCTGCGGTCACT) (3048759:3048776 -1

SCO2794-SCO2795 (3048837 - 3053583)

SCO2810-SCO2812 (3067571 - 3072898)

SCO2817-SCO2818 (3074453 - 3079952)

SCO2821-SCO2824 (3079444 - 3086231)


SCO2875-SCO2879 (3128670 - 3137273) SCO2884 (3137905 - 3141131) SCO2894-SCO2896 (3146985 - 3151744) SCO2898-SCO2899 (3152389 - 3155226) SCO2903-SCO2906 (3154939 - 3160002) SCO2914-SCO2918 (3162847 - 3169835) SCO2921-SCO2925 (3171118 - 3178048)

SCO2926-SCO2928 (3176221 - 3181382) SCO2936-SCO2937 (3186344 - 3191747) SCO2957 (3213479 - 3216057) SCO2960-SCO2961 (3216912 - 3221178) SCO2968-SCO2972 (3227832 - 3234271) SCO2985-SCO2986 (3253989 - 3257977)

GTTCAGCTCGGAGTCGGT), (3046764:3046781 +1 GTTCCGCTTCTTTTCAGC) (3051653:3051670 -1 GTTGGCCTTCTGGACGCC), (3051024:3051041 -1 GTTATCGGCCTGTTAACT) (3071193:3071210 +1 GTCCTCCTCCTGGTGATG), (3072439:3072456 -1 GTTCACCCGGCGCCCGTG), (3069863:3069880 -1 GTTCGCCTCCCAGCCGTC) (3077385:3077402 +1 GTTCGTGCTCTGTTCGTG), (3078936:3078953 -1 GGTCACCCGGGGGTGATC) (3082480:3082497 +1 GTTGACCCGCCGGTCGGC), (3084174:3084191 -1 GTTAACCGGCTGTTGACC), (3083184:3083201 -1 GGTGACGTCCCGGACACG), (3080441:3080458 +1 GGTCAGCCCGCGTACGTC) (3099163:3099180 +1 GTTCACCTCGCGTGCGGC) (3115294:3115311 +1 GTTCACGCCTCGCTCATC) (3117941:3117958 -1 GTCCACCCCCGGTCCGCG), (3116688:3116705 +1 GGTCACGTTCGGGTCGTT), (3117857:3117874 -1 GGTCAGCGTGCCGTCACG) (3131505:3131522 -1 GGTCGCCGCCTGGTTGCC) (3151268:3151285 -1 GTTGACCTCGCCGTCGCG)

(3165435:3165452 +1 GTTCGCCGGGCGGTCGTG) (3171851:3171868 +1 GTTCGCTTTGCGGACACC), (3172146:3172163 +1 GTTCGCCTACGGTACGTG)

(3232509:3232526 +1 GTTCACGCCCTGGCCGCC) (3257960:3257977 -1 GTTCTGCCGGTAGTAGTG), (3254929:3254946 -1 GTTCCCGGTGGGGTCACC)

SCO3002-SCO3005 (3274287 - 3280720)

SCO3007 (3279662 - 3282837)


SCO3045 (3333869 - 3337392) SCO3060-SCO3061 (3351764 - 3355656) SCO3067-SCO3070 (3359064 - 3364212) SCO3075-SCO3077 (3367495 - 3372744) SCO3079-SCO3082 (3372160 - 3377180)

SCO3101-SCO3103 (3395692 - 3400624)

SCO3109-SCO3110 (3403759 - 3412514) SCO3119-SCO3123 (3419021 - 3425963)

SCO3125-SCO3128 (3424878 - 3432184)

SCO3132-SCO3133 (3432453 - 3436026) SCO3137-SCO3138 (3436662 - 3440685) SCO3150-SCO3153 (3449852 - 3455701) SCO3166-SCO3167 (3466222 - 3471205) SCO3172-SCO3173 (3475105 - 3479471) SCO3184-SCO3185 (3487258 - 3493930) SCO3198-SCO3199 (3504418 - 3508907) SCO3203-SCO3205 (3510595 - 3514515) SCO3217 (3528272 - 3532188)

(3280169:3280186 -1 GTTCGCCCAGCCGTCGGG), (3279933:3279950 +1 GGTGACCGGATGTTCACG) (3280169:3280186 -1 GTTCGCCCAGCCGTCGGG), (3279933:3279950 +1 GGTGACCGGATGTTCACG)

(3329314:3329331 +1 GGTCCCCCCCCGTTCGGC), (3333018:3333035 -1 GTTCAGGTGCTGGTAGTA) (3354514:3354531 +1 GTTCCGCTTCTGGTCGTA)

(3375874:3375891 -1 GTTCGCCCGTTGGCAACA), (3376494:3376511 -1 GTGAACCTGCTGTTCGCC) (3399727:3399744 +1 GTTGTCGTCCTGGTCACT), (3399499:3399516 -1 GTTCCTCGCCTGGATATC), (3397210:3397227 +1 GGTGATCCGCTGGTCGCC) (3404515:3404532 -1 GTTGACCTGGCGTTCGGC) (3419634:3419651 +1 GCTCACCCGCGGGACACC), (3425783:3425800 +1 GGTCATCGTGTGGTCGGC) (3430820:3430837 +1 GTTCTTCTGGGGTTCACT), (3430733:3430750 +1 GTTCATCCTGTGGACGGT), (3429462:3429479 -1 GTGCGCCCCGTGTTCACC), (3425783:3425800 +1 GGTCATCGTGTGGTCGGC) (3432820:3432837 -1 GTTCACCCGCGCGTTGGC) (3437290:3437307 +1 GGTCAGCTCGTGTCCGGC) (3455238:3455255 +1 GTCCACCCGCCGGTCGGC) (3468661:3468678 +1 GGCCTCCTCGCGTTCACG) (3488112:3488129 -1 GTCCACCGGCCGGTCGTG) (3506183:3506200 +1 GTTCACCTCCGACCCATG) (3528778:3528795 -1

SCO3230 (3542335 - 3566726)

SCO3231 (3564723 - 3577735) SCO3232 (3575735 - 3584988) SCO3261-SCO3264 (3609876 - 3615359)

SCO3278-SCO3282 (3621465 - 3626663) SCO3288-SCO3289 (3635856 - 3640204) SCO3300-SCO3302 (3647648 - 3653006) SCO3305-SCO3306 (3655071 - 3659543) SCO3309-SCO3311 (3660178 - 3664042) SCO3330-SCO3334 (3680507 - 3693384)


SCO3373-SCO3381 (3735431 - 3745818)

SCO3384-SCO3385 (3746573 - 3751247) SCO3394-SCO3396 (3756393 - 3762706)

SCO3398-SCO3400 (3763143 - 3767173) SCO3421-SCO3429 (3785977 - 3792412)

GGTTACCTGCCGGTCGCT), (3531773:3531790 -1 GGGCACCTGTCCTTCACC) (3561832:3561849 -1 GTTCTCCGTCGCGTCGTC), (3546834:3546851 +1 GGTCACCGCCCGGCCGCG), (3551959:3551976 +1 GTCCTCCTGCTCGACACC), (3562141:3562158 +1 GTCGACCTGGCGTTCGCG) (3574593:3574610 +1 GGTGACCTGGAGTTCATC) (3581420:3581437 -1 GTTCAGCTCCGCGTAGCT) (3614088:3614105 +1 GTTCGGCGGCGGTCCACG), (3612542:3612559 -1 ATTCATGTGCTCGTAAGG) (3639048:3639065 -1 GTTCGCCTCGTGCTCCCG) (3648860:3648877 +1 GGTCAGCCCGGGGTCGCG)

(3691353:3691370 -1 CTCCACCTCCTGGTCAGG), (3686845:3686862 -1 GGTGAACTATGGTTAAGG), (3692890:3692907 -1 CGTCACCCCCGGGTCACG) (3696908:3696925 -1 GTCCACCTCCTCCTCGCC) (3728457:3728474 +1 GGTCACCTCGCGGCCCTC), (3728173:3728190 -1 GGTCAGCCCGTGGTCGTA) (3737164:3737181 -1 GTTCGCCCCCCGGCTACG), (3736559:3736576 -1 GGTCACATCGTGGTCGTG), (3736499:3736516 +1 GGTCGACTTCTCCTCACC), (3735726:3735743 -1 GGTCACCTCGGAGTTGTT), (3738713:3738730 -1 GGCCACATCCCCTTCACC) (3751025:3751042 +1 GTTCACCTGCGCGCTGCC) (3761562:3761579 -1 GGTCTGCTGCTCGCCACC), (3760753:3760770 +1 GTTCTGCTGCTGGTGACG) (3763266:3763283 -1 GTTCATGCCGGGGTCGGC) (3788689:3788706 +1 GGTCAGCTCGCGATCAGG),




SCO3662-SCO3665 (4042330 - 4046981)

SCO3690-SCO3691 (4070572 - 4074649)

SCO3697-SCO3699 (4075249 - 4079997) SCO3718 (4093070 - 4096734) SCO3731 (4104340 - 4106543)


(3787985:3788002 -1 CTTCGCCTCCCCTTCATC) (3881063:3881080 +1 GGCGACCTCCTCTTCACC) (3887379:3887396 +1 GTTCATGTCTACTTCATC) (3909410:3909427 +1 GGTCAGCTTCTCGTCGCC) (3923660:3923677 -1 ATTCACCCATGTGTCACC) (3946425:3946442 +1 GGTCAGCGTTCGGTCACC), (3944459:3944476 +1 GTTCACCGTCTCGCTGCT), (3945517:3945534 -1 GGTCACCTCGGGTCCGCC), (3942015:3942032 +1 GAGCACCCGCTGTTCATC)

(3973746:3973763 +1 GGTGAACTCGCGGCCATG), (3971730:3971747 -1 GTTCAGCCGGTAGTCGTG), (3970771:3970788 +1 CTTCACGCCCCGTCCACT) (3982285:3982302 -1 GGTCACCTGCTGCTCGGC) (3992596:3992613 +1 GGTCTTCTCCGGGTCGCG), (3993256:3993273 +1 GATCACATCTCGTCCATG) (4045549:4045566 -1 GGTCAGCTGCTCGTAGCG), (4044644:4044661 -1 GGCCACCTGCCGGTCGTC) (4074174:4074191 +1 GTTCACCTCGCCGACGCG), (4072392:4072409 -1 GTTCTCGCCCTGGTTACC), (4073283:4073300 +1 GGTCACCCCCCGGCCATA) (4078479:4078496 -1 GTCGGCCTGCTGGTCATG) (4095825:4095842 +1 GGTCACAGCTTCGTCACC) (4106028:4106045 -1 GGTCACGCCCTGGTCGCC), (4105294:4105311 -1 GTTCACCCTGTGTGCACT)

(4167976:4167993 -1 GTTCACCCGGCGTTCACC)

(4193164:4193181 +1

GGTCTCCGCGCGGCCACC), (4192313:4192330 -1 GTTCAGCCCCGGGTCCGG) SCO3843 (4226374 - 4229246) SCO3847 (4230928 - 4234400)

SCO3852 (4237156 - 4239365) SCO3856-SCO3857 (4239850 - 4243402)

SCO3862-SCO3863 (4246800 - 4249656)

SCO3870-SCO3872 (4257228 - 4261536)

SCO3878 (4267713 - 4270843) SCO3880-SCO3883 (4272127 - 4276327) SCO3901 (4295215 - 4299602) SCO3915-SCO3916 (4309991 - 4313773) SCO3919-SCO3925 (4313389 - 4320373) SCO3940-SCO3944 (4334483 - 4341644)

SCO3945-SCO3946 (4339932 - 4344462) SCO3961-SCO3963 (4359548 - 4365685) SCO3972 (4373285 - 4375950) SCO3990-SCO3993 (4386791 - 4390862) SCO3999-SCO4002 (4393003 - 4398238) SCO4007-SCO4008 (4399250 - 4403257) SCO4011-SCO4013 (4406941 - 4411554) SCO4015-SCO4020 (4409971 - 4416944) SCO4046-SCO4047 (4437739 - 4440791) SCO4067 (4456168 - 4460522) SCO4070-SCO4071 (4462358 - 4466885) SCO4090-SCO4092 (4482978 - 4491622) SCO4093-SCO4094 (4490092 - 4494178)

(4233406:4233423 -1 AGTCACGTCCCCTTCATG), (4233426:4233443 +1 GGTCACGTCCCCTTCACA) (4240317:4240334 +1 GTGAACATCGTGGTCACC), (4243009:4243026 +1 GTTCAGCTGCTCTTCGGG) (4247507:4247524 -1 GTTCGGCCGCCGGATACG), (4247214:4247231 -1 AGTCCCCGCCCGGTCACC), (4248015:4248032 +1 GGTCAACTGCCCGTCGCC), (4248149:4248166 +1 ATTCGGGTGGTGTTCATC) (4259796:4259813 -1 GTTCAAATCCTGTTAGCC), (4258111:4258128 -1 GTTCACATCCTGTGAGTC), (4258739:4258756 -1 GTTCACATCCTGTTAGCC)

(4295975:4295992 +1 GTTCGTCCTCCGGCCGCC) (4310445:4310462 +1 GTTCGCCGCCGCGTCGTC) (4314787:4314804 -1 GTGCACGTCCTGGTCGCC) (4337933:4337950 +1 GTTCTCCGGCTGTTCCGC), (4335746:4335763 +1 GGCCACCTCCTCGTCGCG) (4362175:4362192 -1 GGCCACCCTTCGTCCACC)

(4395891:4395908 +1 GTTCGCCGTCGGTACGCC)

(4438589:4438606 +1 GTGCACCCCGCGGTCGTC) (4458894:4458911 +1 GGTCGACCCCCGTTCGCT) (4465459:4465476 -1 GTTCTCGTCGTGCTCGCC) (4484466:4484483 -1 GGTCGCCGCCTCGTCGCC) (4492487:4492504 +1 GTCATCGTCGTGTTCATG)

SCO4097 (4495497 - 4499032) SCO4107-SCO4108 (4504576 - 4509376) SCO4117 (4520256 - 4524319) SCO4119 (4523821 - 4527149) SCO4123 (4534862 - 4537530) SCO4125-SCO4127 (4536923 - 4542480) SCO4129-SCO4135 (4542049 - 4552054) SCO4141-SCO4142 (4554528 - 4558819)

SCO4145-SCO4146 (4558965 - 4564673) SCO4152 (4567800 - 4571638)

SCO4156-SCO4157 (4572113 - 4575991) SCO4181-SCO4183 (4590019 - 4594478)


SCO4239-SCO4242 (4643506 - 4650833)

SCO4246-SCO4249 (4651844 - 4657891)

SCO4250-SCO4254 (4655901 - 4667119)


SCO4321-SCO4325 (4731070 - 4738824)

SCO4340 (4753366 - 4757015)

(4538673:4538690 -1 GGTCATCCTCCGGTCGCC) (4547268:4547285 -1 GTTCGACCCGGATTCGGC) (4557936:4557953 -1 GTTCACCCGGCGTTCATT), (4556316:4556333 +1 GTTCGCCTCGTCCTCGCC) (4568390:4568407 -1 GTACACCTCCTGCTCACC), (4569747:4569764 +1 GTCGACGCGCTGGTCACC) (4593612:4593629 +1 GGTCACATAGCGGCCACT), (4592546:4592563 -1 GTTCACCCACTGGCTGCA), (4591159:4591176 +1 GGTGTCCTCGCCGTCACG)

(4627750:4627767 +1 GTGAACCTACTGGTCATT) (4631504:4631521 -1 GGTCGACCCTGGTTCAGG), (4633107:4633124 -1 GTTCACCTTGGAGCCAGG) (4646101:4646118 +1 CGTCACGTCGCGGTCACC), (4645474:4645491 +1 GGTGACCGTGCGGTCGCC), (4643825:4643842 +1 GGCCAGCCGGTGTTCACG) (4653233:4653250 +1 GGTCAGCTTGTCGTTGCC), (4656156:4656173 -1 GTTCGACCCGCGTCAACT) (4659807:4659824 -1 GTTCACCCGGGCGCCGTC), (4656156:4656173 -1 GTTCGACCCGCGTCAACT) (4698031:4698048 -1 GTTCAGCCGGTAGCCGCC) (4704994:4705011 -1 GTTCGGCCGCGGGTCACC), (4704856:4704873 -1 GTTCGACCTCGGGTCACC) (4732372:4732389 -1 GGTGACCTGGCCTCCACG), (4731863:4731880 -1 GTTCGCCGTGCCGCCACC) (4754343:4754360 -1

GTTCACCCTCTCCCCACC) SCO4341-SCO4346 (4755150 - 4762000) SCO4351-SCO4354 (4766115 - 4770703) SCO4370-SCO4371 (4784438 - 4788116) SCO4382-SCO4383 (4797612 - 4802464) SCO4402-SCO4405 (4820200 - 4825442)

SCO4419-SCO4422 (4835783 - 4840085)

SCO4425-SCO4426 (4841382 - 4846768)

SCO4431-SCO4432 (4850343 - 4853578) SCO4454-SCO4455 (4875023 - 4878370) SCO4459-SCO4462 (4880117 - 4884962) SCO4479 (4897224 - 4900117) SCO4505-SCO4506 (4924750 - 4928094) SCO4512-SCO4516 (4934104 - 4939520)

SCO4521-SCO4524 (4940895 - 4946845)


SCO4562-SCO4563 (4979274 - 4982200) SCO4579 (4998752 - 5001690) SCO4583 (5003917 - 5006927)

SCO4587-SCO4588 (5008444 - 5012708) SCO4594 (5015376 - 5018434)

(4768315:4768332 +1 GGTCATCCCGTGGTCGCC) (4786351:4786368 +1 GTTCACCCACTGGCTGCA) (4820789:4820806 +1 GTTGAGCTTGCGGCCAGC), (4821139:4821156 -1 ATTCACCTCCGCGTCACC), (4821128:4821145 +1 GGTCAACGCGTGGTGACG), (4822660:4822677 +1 GGTCGACCGGCGGTCGCC), (4821066:4821083 +1 GGTCGCCTGCCGGTCATG) (4838211:4838228 -1 GATCACCCGTCGGTAAGC), (4836641:4836658 -1 GTTCACCCGCTGGTTCGC) (4842738:4842755 -1 GTTCAGCGTTCGTTTATC), (4843747:4843764 -1 GTTCACCGAGGGCTCGGC)

(4884024:4884041 -1 GGTCACCGACTCGCCGCC)

(4934209:4934226 -1 GTTCACCCGGCGTCCGCC), (4937066:4937083 +1 GGTCGCCTTTCCGTCGTG) (4941364:4941381 +1 ATTCTGCCGGTCGTCATG), (4943486:4943503 -1 GTTCACACTGGCGAAACC), (4945836:4945853 -1 GGTCGCCTTCTAGTTGCC) (4945836:4945853 -1 GGTCGCCTTCTAGTTGCC) (4959024:4959041 -1 GGTGACGCGCTGGCCACC) (4964242:4964259 -1 GGCCACCCCGCGGTCACG), (4963422:4963439 -1 GTTCACCTTGGACTCGGC) (4999684:4999701 -1 GTTCGCCGCTCGGTGATC) (5006118:5006135 -1 GTTCACCCGTGAGCCGCC), (5004815:5004832 -1 GGTCACGTTTCGATCACC) (5009441:5009458 +1 GGTCATGGCGCAGTCACG)

SCO4607 (5029609 - 5033213) SCO4612-SCO4614 (5035030 - 5039276) SCO4630 (5050465 - 5053724)

SCO4635-SCO4638 (5060599 - 5064669)

SCO4644-SCO4646 (5067592 - 5072680) SCO4678-SCO4679 (5107924 - 5110960) SCO4698-SCO4699 (5121836 - 5127638) SCO4701-SCO4705 (5126609 - 5131542) SCO4710-SCO4717 (5131484 - 5136719) SCO4722-SCO4727 (5136655 - 5142723) SCO4768 (5178727 - 5181338) SCO4773 (5184771 - 5187988)

SCO4779-SCO4781 (5196710 - 5204018)




(5032095:5032112 +1 GTTCGCCGCCTGGACGCC) (5053685:5053702 +1 GGTCAGCTTCTGGTCGCC), (5052598:5052615 +1 GTTCGTATCCGGGTCATA) (5064228:5064245 +1 GGTCATCTCCTGTTCGCG), (5061348:5061365 -1 GTTGACCTTCTCCTTACC), (5061277:5061294 -1 GGTCGCCCGCCGTTCGCC) (5071763:5071780 -1 GTTCACGTTCGGGTCAGA) (5110330:5110347 -1 GTCCACCGGTGGTTCACC) (5123749:5123766 +1 GTTCACCCACTGGCTGCA) (5127655:5127672 +1 GGTCATCGACTCTTCGGC) (5133943:5133960 -1 GATCAGCTTCGAGTCACG)

(5186364:5186381 +1 GTTCACGTGCCGGAAGTT), (5185508:5185525 -1 GTTCACCCAGCGGCAGGG), (5185450:5185467 +1 GTCCACCCCGCGTACACC) (5199415:5199432 -1 ATTCACCGAGTGCTCACA), (5197569:5197586 -1 GGTTGCCCGGTGGTCACA), (5197217:5197234 -1 GTTCGGCCCGTGCTCAGG) (5222539:5222556 +1 GGTAACCGGCCGTCCACG) (5229182:5229199 -1 GGTCACCTCCCGGCAGGC), (5228723:5228740 -1 GTTGACCCCGCGGTCGCG) (5245400:5245417 -1 GTCCAGCGCCTCTTCACG) (5250180:5250197 +1 GTTCACCTTCCGGTACGA), (5253625:5253642 +1 GTTCGGCTGCTGGCCGCC) (5271910:5271927 +1 GTTCACCTACCCGATGCT) (5287743:5287760 -1 GTTCACGTGCTGGACACC) (5294407:5294424 -1 GGTCAGCTCCGCGTCGTC), (5296005:5296022 -1 GTTGCCCTTGCCTTCACC),

SCO4874 (5302719 - 5307604)

SCO4875-SCO4876 (5305624 - 5309020)

SCO4878-SCO4880 (5308376 - 5314349) SCO4883-SCO4886 (5314652 - 5322317)

SCO4899-SCO4903 (5331682 - 5337536)

SCO4913-SCO4920 (5344752 - 5356182) SCO4930-SCO4932 (5362797 - 5368501)

SCO4934-SCO4935 (5367677 - 5372559) SCO4947-SCO4948 (5380148 - 5387486)

SCO4952 (5388080 - 5390676) SCO4978-SCO4979 (5414297 - 5419117) SCO4983-SCO4984 (5420206 - 5423911) SCO4990-SCO4993 (5427927 - 5434066) SCO4996 (5434560 - 5437069) SCO5003-SCO5004 (5438963 - 5443938) SCO5010-SCO5012 (5446243 - 5450575)

(5299696:5299713 +1 GTTCAGCCCCTGGCCGCC) (5303639:5303656 +1 ATTCGTCCATTGTTCACC), (5305685:5305702 +1 GGTCACCGTCCGGCCGCC) (5308015:5308032 -1 GTTCGGGCCGCGGTCACC), (5305685:5305702 +1 GGTCACCGTCCGGCCGCC) (5310400:5310417 -1 GTTCACCGCGTGTCAAGG) (5319451:5319468 -1 GTTCAGCTGCTCTTGACC), (5316966:5316983 +1 GTTGACAGGGCGGTAACC), (5315592:5315609 +1 GTTGATCGTGGGTCCATC), (5318340:5318357 +1 GGTCTACGCGCGTTAATC) (5336583:5336600 +1 CTTCATCTGCCCTCCACG), (5332212:5332229 +1 GGTCAGCTCCGGGTCGCC), (5335837:5335854 +1 GCTCACATCCCCGTCACC) (5354878:5354895 +1 GGTCACCGACGAGTCGCC) (5363885:5363902 -1 GTCGACACGGCGTTCATG), (5363768:5363785 -1 GGTTAACGCGTGTTAACA) (5384621:5384638 -1 GTTCACCAGGCGTTCCTG), (5384423:5384440 -1 GTTCTCCTGGTACTCGCT), (5382089:5382106 +1 GGCCACGTCCTGCTCACC), (5385730:5385747 -1 GGCCACCTCGGGGTCGTC), (5380361:5380378 -1 GGTCGCCTCGTCGTCGCC), (5384366:5384383 -1 GGTCACCGCGCGGCCGTC) (5390486:5390503 -1 GTCCACACCGCGTCCACC) (5414675:5414692 +1 GCTCTCCTCGTGGTCGTG)

(5442808:5442825 +1 GTTCTGCTCCGCGACACC) (5450153:5450170 +1 GTTCATCTGGCCGACAGT), (5449130:5449147 -1 TGTCTTCTCCTGTTCATG), (5447956:5447973 -1

SCO5017-SCO5023 (5451526 - 5458902) SCO5036-SCO5039 (5471658 - 5478176)

SCO5040-SCO5042 (5476315 - 5483009)

SCO5045-SCO5046 (5484654 - 5487820) SCO5048-SCO5051 (5487244 - 5493431)


SCO5117-SCO5120 (5562836 - 5569368) SCO5142-SCO5145 (5588711 - 5593634) SCO5161 (5607309 - 5610166) SCO5190 (5646747 - 5649115) SCO5220-SCO5222 (5678047 - 5683101)

SCO5232-SCO5233 (5691292 - 5695644) SCO5246-SCO5249 (5705075 - 5712030)

SCO5259-SCO5262 (5716518 - 5723660)

SCO5287-SCO5288 (5759383 - 5762690) SCO5300-SCO5301 (5771612 - 5775621)

GGTCTCCTTGCGTTCCTC) (5455737:5455754 +1 GGTCACGTTCGGTTCTTC) (5477312:5477329 +1 GTTCAGCCGCGGTTCAGC), (5477301:5477318 +1 GTTCAGCCGCGGTTCAGC) (5479571:5479588 +1 GTTCGTCCCGCAGAAATC), (5477312:5477329 +1 GTTCAGCCGCGGTTCAGC), (5483008:5483025 +1 GTTCCTCGTCGGTCCACC), (5478658:5478675 -1 GTGCGCCCGGTCTTCACG), (5477301:5477318 +1 GTTCAGCCGCGGTTCAGC) (5493078:5493095 -1 GTTCCACCTCGGGCCAGG), (5489335:5489352 +1 GGTCACCGGCTCGTCGGT) (5540361:5540378 -1 GGTGATCTCGCGGTCGCC) (5561659:5561676 -1 GGTCAGCTCCTGGCCGTC), (5560838:5560855 +1 GTTCAGCTCCGGCTCGCT), (5558827:5558844 -1 GTTCTCGTCCTCGTCGTA), (5556379:5556396 -1 GTTCACCTTGCGGATCCG) (5588904:5588921 +1 GGCCACCCCGTCTCCACC) (5648110:5648127 -1 GTTCCTGCGGTGTTCATG) (5680550:5680567 -1 GGTCACCTCGGCGTAGTC), (5678927:5678944 +1 GGTAACCCATGGGTAATG) (5693707:5693724 -1 GTTCCCCCACCGTCCGCC) (5709600:5709617 -1 ATTGCCCTCCCGGTCATG), (5706039:5706056 -1 GTTTTCCGCGCGGTCGTC), (5710439:5710456 -1 GTTCATCGGCTGGTTGTA) (5719344:5719361 +1 GTTCTCGGTCTGGTCGCC), (5723492:5723509 -1 GGTCACCCCGTGGTCGGC) (5775612:5775629 -1 GGTGTCGCGCTGTTCATC), (5773302:5773319 -1

GTTCATCTCCTGGGCGCG) SCO5329 (5797773 - 5801470) SCO5331 (5800998 - 5806600) SCO5333 (5806420 - 5809325) SCO5353-SCO5354 (5819662 - 5824504) SCO5358-SCO5360 (5827747 - 5832429) SCO5364-SCO5370 (5832806 - 5840977) SCO5396 (5863669 - 5866601) SCO5399-SCO5401 (5869613 - 5875457)

SCO5404-SCO5405 (5874963 - 5878884) SCO5422-SCO5425 (5890522 - 5898793)


SCO5456 (5940319 - 5944667) SCO5458-SCO5460 (5944149 - 5948974) SCO5467-SCO5468 (5951154 - 5955361) SCO5470-SCO5473 (5954947 - 5960941) SCO5476-SCO5477 (5961095 - 5965976) SCO5484-SCO5487 (5970342 - 5974862) SCO5509-SCO5511 (5996336 - 6003875)


SCO5539-SCO5540 (6033995 - 6039754)

SCO5550 (6048735 - 6051379)

(5804745:5804762 -1 ATTCACGGGGTGGACATT)

(5829243:5829260 +1 GTTCAACTCCGCGTACTC) (5837056:5837073 +1 GTTCAACCCCCGTTCCTT) (5863945:5863962 -1 GACCACCTGGTGGTCATC) (5870524:5870541 -1 GGTATCCCGCCCGTCACC), (5870556:5870573 +1 AGTAAACCCTCGTTCACT) (5878330:5878347 -1 GGTCCGGTGGTGTTCATG) (5893041:5893058 -1 GATCACCGCCGGTTCGCC), (5896191:5896208 +1 GTTGACCGCGCAGTCGCC) (5903162:5903179 +1 GTTCACGTTCTCGCTGTC) (5911093:5911110 -1 GTTCACCCGGTCCTTGTC) (5929966:5929983 +1 GTTGACCGGGCGTTCACG), (5929977:5929994 +1 GTTCACGTTCGATAAACG), (5927524:5927541 -1 GGTCACACGGCCTTCACA) (5946372:5946389 -1 GGTTAGCGGGCGTTCACG) (5959969:5959986 +1 GTTAGCCTTTCAGCCACG) (5963904:5963921 +1 GTTCTCCTCGGGTCCGTA) (6003722:6003739 +1 GGCTACCGCCCGGTCACC), (6000495:6000512 +1 GTTCACCTCGCCGCTGCT)

(6031483:6031500 -1 AGTCACCTCACATTCATG), (6033936:6033953 -1 GGTCTGCCGTTCGTCATC) (6038523:6038540 +1 GGTCACCCGCCAGTTGCG), (6034819:6034836 +1 GTTCGCCGAGCCGTCGCC) (6049039:6049056 +1 GTCGACCTTCGGGTAATG)


SCO5626-SCO5627 (6124563 - 6128060) SCO5629-SCO5632 (6127360 - 6133679)

SCO5638-SCO5642 (6136881 - 6142583)

SCO5647-SCO5648 (6144467 - 6149177)

SCO5667-SCO5669 (6165490 - 6170817) SCO5690-SCO5693 (6196356 - 6204796)

SCO5703 (6213338 - 6215871)

SCO5707-SCO5710 (6218719 - 6226837)

SCO5716 (6230310 - 6234175) SCO5728-SCO5729 (6245517 - 6250421) SCO5742-SCO5743 (6264362 - 6267533) SCO5746 (6274223 - 6276900)

SCO5748 (6278265 - 6285754) SCO5750-SCO5751 (6285097 - 6291053)

(6066478:6066495 -1 GGTCAGCTCCGGGTCGGC) (6077461:6077478 -1 GGTCAGCTCCTGCTCGCG) (6101673:6101690 -1 GTTCTCCTCGCCGTCGTG), (6099580:6099597 +1 GTCCACGTGCGCGTCATC) (6129658:6129675 -1 GTTCGCCCCCGGTTGACC), (6132939:6132956 -1 GCTCACCTCCCGGTCGGG), (6130284:6130301 +1 GTTCGGCGTCGATCCACC) (6139974:6139991 -1 GTTCACCCACTGGCTGCA), (6141229:6141246 -1 ATTCTCCCAGTTGTCATC), (6138124:6138141 +1 GTTTGCCCTGCCTTCAGA) (6145877:6145894 +1 GGTCTGCGCCTGGACACC), (6144506:6144523 +1 GGTCAGCCACGATTCGTG), (6144834:6144851 -1 GGTCAGCCCGTGCTCGCG) (6167925:6167942 -1 GGTCACGTCCTGGTCGCC) (6200144:6200161 -1 GTTCCCCTTGTAGACGTC), (6197215:6197232 +1 GGTGACCTGCTGTTCCTG) (6214023:6214040 -1 GTCCGCCTCTCGTTCGTC), (6214045:6214062 -1 GTCCGCCTCTCGTTCGTC) (6219669:6219686 +1 GTTCGCGGCGGGGCCATC), (6219691:6219708 -1 GTTCACCCGCCGGTCCGG) (6232354:6232371 -1 GTTCGTCGCCGGGTCGCC) (6246940:6246957 -1 GTTCACCTCGGAGTGGTC) (6276328:6276345 -1 GGTCACCCTCGATCCGGG), (6276015:6276032 -1 GTTGACCTTCTCCTTACC), (6275950:6275967 -1 GTTTCCCTCGCGGCAACG), (6275182:6275199 +1 CGTCACTTCGTGTTCACG) (6285285:6285302 -1 ATTCTCCGGCCGGTCATC) (6285285:6285302 -1 ATTCTCCGGCCGGTCATC)

SCO5754-SCO5755 (6291411 - 6294446) SCO5777-SCO5778 (6313572 - 6317337)

SCO5807-SCO5808 (6350356 - 6353806)

SCO5822 (6370006 - 6374129) SCO5833-SCO5834 (6383115 - 6386247) SCO5845-SCO5846 (6398582 - 6403331) SCO5888-SCO5891 (6443587 - 6450548) SCO5901-SCO5905 (6466755 - 6474452) SCO5907-SCO5910 (6473317 - 6476291) SCO5912 (6476438 - 6481035)

SCO5917-SCO5918 (6483965 - 6488272) SCO5921-SCO5922 (6488617 - 6492442)

SCO5925-SCO5930 (6493967 - 6500377)

SCO5932-SCO5933 (6500336 - 6504922)

SCO5945 (6510948 - 6514768)


(6293618:6293635 -1 GTTCGCCCCCCGGCCATC) (6315618:6315635 -1 GTTCATCGGCCGTACGCT), (6317335:6317352 +1 GGTGGCCGCCTGGTCACC) (6352806:6352823 -1 GGTCATCGCCCCGCCACT), (6351137:6351154 +1 GGTCACCGGCCGGATAGG), (6351126:6351143 +1 GGTCCCGTACGGGTCACC) (6370764:6370781 +1 GTTGCCGGTTTGTTCATG)

(6445635:6445652 -1 GGTCGTCCTTGGTTCATC) (6467516:6467533 +1 GGCCGGCTGCTGTTCACG) (6475108:6475125 +1 GTTCTCGCCCTGGACACG) (6478571:6478588 -1 GGTCATCTCGGCGACACC), (6477926:6477943 -1 GGTCATCTGCGACTCACG) (6486084:6486101 +1 GGTAAAGCGCTGTCCATG) (6491441:6491458 +1 TGTCATCCATCGTTCACG), (6489673:6489690 +1 GTTCACCTTCTGGCCTTC), (6488998:6489015 +1 GGTCACCCCTTGTTGGCC), (6488629:6488646 +1 GTTCAACCGGCAGTCGCC) (6496123:6496140 -1 GTACACCGGCCGTTCGCC), (6495935:6495952 -1 GGTCAGCTCGGGTTCGGG), (6496033:6496050 +1 GTCCACGTCGTCGCCACC) (6502156:6502173 +1 GTTCATCTACCGCACGTC), (6501215:6501232 +1 GTTCGCCGGTTCTCTATG) (6513633:6513650 -1 GGTCACCGCGTGGCCGCG), (6513752:6513769 -1 GTTCACCGTCCGGCCGCG) (6540098:6540115 +1 GTTCACCTGGACGTCGCC) (6554575:6554592 -1 GGTGACCTCGCGGTCGGG) (6556878:6556895 +1 GTTCTCGCGCCAGTCGCC) (6571681:6571698 -1 GGTCACCCGGTGGCCACC), (6568843:6568860 -1

SCO5999 (6574305 - 6579019) SCO6005-SCO6006 (6583624 - 6588102)

SCO6021 (6602996 - 6606621) SCO6033-SCO6034 (6622033 - 6626437)

SCO6041-SCO6044 (6631494 - 6638228) SCO6069-SCO6071 (6658273 - 6664991) SCO6077-SCO6078 (6670184 - 6674944) SCO6095-SCO6096 (6693875 - 6697805) SCO6108 (6708909 - 6712471) SCO6112-SCO6116 (6714766 - 6723509)

SCO6130-SCO6131 (6730917 - 6734691) SCO6145 (6743922 - 6747640) SCO6152-SCO6153 (6752257 - 6755784) SCO6155-SCO6159 (6755908 - 6763416) SCO6167 (6768408 - 6771778) SCO6170-SCO6172 (6772787 - 6778756) SCO6179-SCO6180 (6782983 - 6787736) SCO6196-SCO6198 (6804869 - 6813269)

SCO6199-SCO6201 (6811417 - 6818281)


GTTCCGCGCCCGGCCACG) (6576234:6576251 -1 GTTCAGCGTCTCGTCGTC) (6583747:6583764 +1 CTTCACCTCCCGGCCGCC), (6586163:6586180 +1 GGTGTCCCGCTGGCCATC), (6587634:6587651 +1 GTTCTTCCTCTATTCGTT), (6586961:6586978 +1 GTCCTCGCCGCGGTCACC) (6622299:6622316 +1 GGTCAGCGCCGGGTCGTC), (6624501:6624518 -1 GTCCACGCTCTGGTAGCG) (6659667:6659684 -1 GTTCCCCCCGCGGCCACT) (6671834:6671851 +1 GGGCACCTCGTGGTCAGC) (6694599:6694616 +1 GTTCGCCCTGGAGCCAGG) (6715100:6715117 -1 GGTGTCCTGCTGGTCACC), (6722476:6722493 -1 GGTCAGCGGCTGGTCGGC), (6715924:6715941 -1 GTCCAGCCCCCGGCCACG) (6745341:6745358 -1 GTTGACCTTCTCCACACC) (6762008:6762025 -1 GGCCAGCTCGCGGTCACC) (6770512:6770529 -1 GTTCGACCTCGGTCCGCC) (6773668:6773685 -1 GTTCATGTGCTGTTCACG) (6786679:6786696 +1 GTCGACCTGCTGGCCATC) (6812369:6812386 +1 GTTCACACCTTGTACATG), (6808620:6808637 +1 GATCAACTTCTGGTCAAC) (6816618:6816635 -1 GTTCATCTCCTCGTAGAC), (6816231:6816248 -1 GTTCAGCTCGTGGTCGTC), (6814370:6814387 +1 GTTCGCCCGGCGCCAACG), (6812369:6812386 +1 GTTCACACCTTGTACATG) (6822425:6822442 +1 GGTCACCCCGCGTTAGGT) (6845113:6845130 -1 TGTCCCCTCCTGTTCACC),

SCO6231-SCO6234 (6852107 - 6860594)

SCO6235-SCO6240 (6858658 - 6865092)

SCO6247 (6868725 - 6872062) SCO6259-SCO6261 (6880335 - 6884968) SCO6265-SCO6266 (6889528 - 6893237) SCO6268-SCO6269 (6892258 - 6896200) SCO6272 (6898170 - 6901822)

SCO6273 (6899898 - 6908356)

SCO6274-SCO6275 (6906413 - 6932959)

SCO6303-SCO6304 (6961349 - 6965300) SCO6309-SCO6310 (6967600 - 6972376)

SCO6319 (6975852 - 6978634) SCO6345-SCO6347 (7002454 - 7007739)

SCO6366-SCO6368 (7027165 - 7031195)


(6846379:6846396 +1 GTTCACGGCGCGGTCGGC) (6858258:6858275 -1 CTTCACACTCTGGTCAGC), (6856535:6856552 +1 GGTCAGCTCCTGGTCGGC), (6859655:6859672 +1 GGTCAGCGGTCGGTCGTG), (6852098:6852115 +1 GTCCACCTTCTCGTCGGG) (6863332:6863349 +1 GTTCCTCCTCCATTCACT), (6859655:6859672 +1 GGTCAGCGGTCGGTCGTG) (6883592:6883609 -1 GGCCAGCCGCTGGTCATA)

(6898982:6898999 +1 GTCCATCCCGCGGTAATC), (6899053:6899070 -1 GGTAACCCCGGGGCAACC) (6903402:6903419 +1 GGTCACGTCCTCGTCGCC), (6904530:6904547 -1 GATCAGGTGCTGTTCACC) (6926152:6926169 -1 GTTCACCGGTCGGCTGTC), (6932089:6932106 +1 AGTCACGGCGTGGTAACT), (6928786:6928803 +1 GGCCAGCCGCGGTTCACG), (6910019:6910036 -1 GATCAGGTGCTGTTCACC), (6925136:6925153 +1 GTTCGTCGGCCAGCCACC) (6962814:6962831 -1 GTTCAACGACTGGTCCGC) (6968352:6968369 +1 GGTCACCCGGGCGTCGGG), (6971753:6971770 +1 GTTCTCCGGCTGGCCGTC) (7004832:7004849 +1 GTTCACCGTCGAGTGATC), (7006139:7006156 -1 GGTCACCTCGTGCTCCCC) (7030677:7030694 +1 GGTGACCTGGTCGTCGCG), (7030666:7030683 -1 GGTCACCGCCCGGCCGGC)

(7097510:7097527 -1 GTGCACCGCCCCGTCACG), (7100294:7100311 -1 GGTCACCGGCAGTTCGTG), (7099504:7099521 +1

GTTCACCGCGCGGACCCG), (7097553:7097570 +1 GGTCAACCAGCCGTCAGT) SCO6431 (7107264 - 7112779) SCO6432-SCO6437 (7110866 - 7122122)

SCO6442-SCO6445 (7124293 - 7131350) SCO6466-SCO6467 (7153053 - 7157247) SCO6473 (7160921 - 7164264) SCO6488-SCO6492 (7179803 - 7187829)


SCO6534-SCO6535 (7223958 - 7231248)

SCO6546-SCO6548 (7239806 - 7246986)

SCO6560 (7258476 - 7262416)

SCO6567-SCO6570 (7268589 - 7275564)


(7120972:7120989 -1 GTTCACCGTCCGGCCGGG), (7117424:7117441 -1 GTGCACCTGCTGGTCGTA) (7126035:7126052 -1 GTTCCCCCGCCGGTCAGC) (7163945:7163962 -1 GTTCACCCGCTATCTGCT) (7180088:7180105 -1 GTTCACCTTCGAGCCGTG), (7182143:7182160 -1 GTTGACCTCGGCGACACC), (7181938:7181955 +1 GTTCTACCCGCGGCCGCG), (7184645:7184662 +1 GTTCCCGTGCTGCTCATT), (7184630:7184647 +1 GTTCACGTGCCGCTCGTT) (7201125:7201142 +1 GTTCACGGTGCCGTCGCC) (7219943:7219960 +1 GTCCTGGTCCTGGTCACC), (7219340:7219357 +1 GTCCAACTGGTCTCCACC) (7224244:7224261 -1 GTTCATCCCGGCGTCCTG), (7226744:7226761 +1 GTTGACCGTGCGTTCCTG), (7226346:7226363 +1 GTTCAGCTCCCAGCCGCC) (7243612:7243629 -1 GTTCAACTCCGGCCCAGG), (7244245:7244262 -1 GTTCTGGTACGGGTCATG), (7246124:7246141 -1 GGTAGCCTCCCGTTCGCG) (7258975:7258992 +1 GTTCTGCCACTGGTCGCC), (7261831:7261848 +1 GTCCACCGGCGGGTCGTG) (7272469:7272486 +1 GTCGACGTCCTGGTCATC), (7269797:7269814 +1 GGTCACCCTGCGCTCGCC) (7282882:7282899 -1 GGTCAGGCCCTGGTAGCC) (7289950:7289967 +1 GGTCACCTCCCGGTAGGC) (7292915:7292932 +1 GTTCACCCGCTGACCACG), (7295895:7295912 +1 GTCAACCCGTTGGTCAGG), (7289950:7289967 +1

SCO6593 (7305616 - 7311059) SCO6594-SCO6597 (7309408 - 7319040)

SCO6602-SCO6604 (7321891 - 7327169)

SCO6611-SCO6614 (7331818 - 7337225)

SCO6620-SCO6623 (7339945 - 7348256)

SCO6627 (7352207 - 7357839) SCO6635-SCO6636 (7361943 - 7370748)


SCO6723-SCO6724 (7477448 - 7480896)

SCO6729-SCO6730 (7480508 - 7485102) SCO6742-SCO6743 (7496718 - 7502850)

SCO6755-SCO6759 (7511283 - 7517928)

SCO6773-SCO6775 (7530179 - 7534869)

GGTCACCTCCCGGTAGGC) (7310584:7310601 +1 GTTCACGTTGTAGTAGCA) (7310584:7310601 +1 GTTCACGTTGTAGTAGCA), (7313815:7313832 -1 GGTCAGCTGCCAGTCGCC) (7325080:7325097 -1 GTTGACCGGGCCGTCGCC), (7322754:7322771 -1 GGTCACCTCGCGTCCGTT) (7334952:7334969 -1 GGTGACCCGCCGGTCACA), (7334443:7334460 -1 GGTCACCCGGAGCTCACC) (7345126:7345143 +1 ATCCTCCTCGTGTCCATG), (7346914:7346931 -1 GTTCACCCCGGCGTCCGC), (7348230:7348247 -1 GTTCACCCGGTATTGGTA) (7364946:7364963 +1 GATCAGCTCGGCTTCACC), (7368998:7369015 -1 GGTGATCTCCCGTTCGGC) (7396915:7396932 -1 GTGGACCGCGTGGTCACC) (7449546:7449563 -1 GTTCACCGCCCGTTTCCA) (7464384:7464401 +1 GTTCTTCGGGTGGTCGCA) (7466410:7466427 -1 GTTGCCGCCGTGTTTATC), (7464384:7464401 +1 GTTCTTCGGGTGGTCGCA), (7465686:7465703 +1 GTTCAGCCACTCGTCGGG) (7478777:7478794 -1 GGTCGCCCCGCCGTCGTC), (7479528:7479545 -1 GTTCAGCGAACGGTTACC) (7497032:7497049 -1 GTTCAGCTCCAGGTCGGC), (7500923:7500940 +1 GTTCACCGCCTCGTCCTC) (7514871:7514888 -1 GTCCTGCTGCTGTTCAGC), (7517562:7517579 +1 ATTCAACGGCCCGACACC), (7512317:7512334 -1 GTGATCCTGGTGTTCACC), (7514543:7514560 +1 GGTCTCGCGCTGGTCGTC) (7530553:7530570 +1 GGTCAGCTCGGGTTCGGT)

SCO6795-SCO6798 (7556438 - 7560428) SCO6808-SCO6809 (7569606 - 7573336)

SCO6811-SCO6813 (7571869 - 7576238) SCO6816-SCO6824 (7576851 - 7590635)



SCO6937-SCO6938 (7701025 - 7704887) SCO6972-SCO6975 (7738853 - 7744884)

SCO6978-SCO6980 (7744741 - 7750055)


(7570283:7570300 -1 GGTCACCTGCCCGCCAGG), (7570997:7571014 -1 GATCACCCTGCGTCTATG) (7582627:7582644 -1 GGTGACCCACTGGACACC), (7584021:7584038 +1 GTTCTCCTTGCGGCCGCG), (7582536:7582553 +1 GGTCACCTCGTCGCCGTC), (7588687:7588704 +1 GTCCTCCTCCCGGTCACA), (7586925:7586942 +1 GTTCCCCTGGCGGCCATC) (7617177:7617194 -1 GTTCCCCCGCTGCTCGCC) (7620024:7620041 -1 GTTCAGCCGGCAGACGCC), (7624064:7624081 +1 GGTCACCGCCTCGTCGCG)

(7670463:7670480 -1 GTTCTCCCTTCAGCCGTC) (7688844:7688861 -1 ATTCAACTCCCGGCCGGC), (7692773:7692790 +1 GGTCACGTTGCCGTCGCG), (7691220:7691237 +1 GTTCACCTGCTGTTCTCC), (7690945:7690962 -1 GTTCAACTGGCCGGAACC) (7702291:7702308 -1 GTGCACCGCCTGTTCACC) (7740443:7740460 +1 GGTAAAGTGCTGTTCGCG), (7743338:7743355 +1 GGTCTCCGCCGGGTCGCC) (7748461:7748478 +1 GTCAACCTCGCCGTCACC), (7747996:7748013 -1 GGTCACCGCCGGCTCAGC), (7749039:7749056 -1 GATCACCTCCGGGTCGCG), (7746442:7746459 +1 GGTGACCCAGCGGTCGTC), (7748269:7748286 +1 GGTGTCGCCGTGGTCACC) (7756082:7756099 -1 GGTCATGCCCGGGCCACG) (7773735:7773752 +1 GGTCAGCCGCTGTTCGGG) (7777288:7777305 +1 GTTCCGCCTCTGTTCGCT),

SCO7007-SCO7009 (7780548 - 7787367)

SCO7010-SCO7013 (7785480 - 7792565)

SCO7015-SCO7018 (7791823 - 7802600)

SCO7019-SCO7021 (7800756 - 7809124)

SCO7023-SCO7025 (7808224 - 7813095) SCO7028-SCO7031 (7812971 - 7820447) SCO7037 (7825610 - 7831005) SCO7041-SCO7047 (7833447 - 7838980) SCO7077-SCO7080 (7865148 - 7871519) SCO7083-SCO7089 (7871697 - 7878241) SCO7092 (7879228 - 7882130) SCO7094-SCO7095 (7883751 - 7888082) SCO7100-SCO7104 (7889426 - 7896073) SCO7126-SCO7130 (7917561 - 7923885) SCO7136 (7927742 - 7930485) SCO7159-SCO7160 (7953049 - 7957833) SCO7164 (7958459 - 7962477) SCO7171-SCO7172 (7967419 - 7970406) SCO7175-SCO7176 (7971971 - 7978242)

(7779459:7779476 +1 GTCCACCGGCTCGACACC), (7780811:7780828 +1 GTCCTCGCGCTGGTCACG) (7782171:7782188 -1 GTGAACCTGCGGTTCATG), (7780811:7780828 +1 GTCCTCGCGCTGGTCACG) (7787899:7787916 -1 GTTCACCCCCTGGTACGT), (7789906:7789923 -1 GTTCTTCTCCTGGTACCC), (7787551:7787568 -1 GTTCACCCCGGAGCAGCC) (7800193:7800210 +1 GGTCACCGTGCCTCCACA), (7802061:7802078 +1 GTTGAGCCGCTGTACGTG), (7798440:7798457 -1 GATCACCTTCCCGTCGTC), (7793513:7793530 +1 GTCGAGCCGTTGGTCATG) (7806837:7806854 -1 GTTCACCGTGCGGTACTC), (7809007:7809024 +1 GGTCTGCGCCGCTTCACC), (7804970:7804987 -1 CTTCAACCACGGTCAACC), (7802061:7802078 +1 GTTGAGCCGCTGTACGTG), (7803088:7803105 +1 GGTCTGCCCCAGTTCACG), (7806263:7806280 -1 GGTCACCCCCTGGCCGCG) (7809007:7809024 +1 GGTCTGCGCCGCTTCACC) (7825846:7825863 +1 GGTCACCCTCCGGCTGCG) (7837182:7837199 -1 GGTCACCCCCTCGACGGC) (7872388:7872405 -1 GTTCGAGTTCTCTCCAGG) (7886285:7886302 -1 CTTCATCTGCGGGCCACG) (7920813:7920830 -1 GCTCACGCCCGGTTCACT) (7929157:7929174 -1 GGTGACACGCCGTTCAGC) (7959920:7959937 -1 GTGAACCCGGTGGTCACC) (7969635:7969652 -1 GTTCAGCCGCCGTTTCTC) (7974861:7974878 -1 GTTCTCCGCGGGCTCACA),

SCO7179-SCO7181 (7977957 - 7983402)

SCO7185 (7984081 - 7987271)

SCO7190-SCO7192 (7992470 - 7997294)

SCO7193-SCO7196 (7995511 - 8001617) SCO7207-SCO7211 (8008646 - 8014374)

SCO7213-SCO7214 (8016040 - 8020021) SCO7218 (8021130 - 8024167)

SCO7234 (8040721 - 8044442) SCO7238-SCO7240 (8045083 - 8050662)

SCO7253-SCO7254 (8062663 - 8067280) SCO7259-SCO7263 (8069834 - 8075172)

SCO7282 (8087496 - 8089978) SCO7311-SCO7314 (8117005 - 8122440) SCO7317-SCO7319 (8121631 - 8127915) SCO7334-SCO7337 (8145713 - 8152579) SCO7338-SCO7340 (8150576 - 8156017) SCO7354-SCO7358 (8164621 - 8173222)

(7977206:7977223 +1 GGTCAGCCCGCGTCCGCG), (7972297:7972314 +1 GGCCAGCGCCTGTTCATC) (7979412:7979429 +1 GTTCACCCGGTCGGTACC), (7980621:7980638 +1 GTTCATCGGCCCGTAGCC), (7978763:7978780 +1 GGACACCGTCCGTTCACG), (7978818:7978835 -1 GTTCCGCTGCCGGACACC) (7984781:7984798 +1 GTGCAACTGCTCGTCATC), (7986333:7986350 -1 GTTCGTCTGCCCGTCATC) (7993224:7993241 -1 ATTTACCCCCCGTCCATG), (7993540:7993557 +1 GGTCACCTTCGACAAACG), (7993640:7993657 -1 GTTCACACTGCGGTTGGC) (8010254:8010271 +1 GGTCACACGCCGGTCATC), (8014274:8014291 +1 GTTCGGGTCGTGTTCGCC), (8010188:8010205 +1 GTTCAGGGCCGGGTCATC) (8022908:8022925 -1 GTCCAGCTGTCCTTCAGG), (8022954:8022971 -1 GATGACCTCGGGGTCACG) (8050526:8050543 -1 GGTCACCTCGGCGCCGTG), (8045420:8045437 +1 GTTGACGGTGTGTTCGGC), (8049646:8049663 -1 GGTCAGCGGGCGGCCACC) (8073104:8073121 +1 GTTGAACTGGTCTACACC), (8073093:8073110 -1 GTTCAACTTGCGTTCAGG) (8119219:8119236 -1 GATCACACCTTCTTCACG) (8122614:8122631 -1 ATTCGCCCCGTGTTCCCC) (8150775:8150792 +1 GGTCACCTTCCGGACGGT) (8150775:8150792 +1 GGTCACCTTCCGGACGGT) (8168771:8168788 +1 GTGCACCTCCGGGTCGCC), (8165255:8165272 -1 GTGCAGCCGGTGGTCAGG),

SCO7387-SCO7388 (8198503 - 8202621) SCO7392-SCO7393 (8203060 - 8206306) SCO7398-SCO7402 (8209201 - 8217082) SCO7407 (8219304 - 8223349)

SCO7410-SCO7411 (8223785 - 8227962)


SCO7468 (8279867 - 8283165) SCO7476-SCO7477 (8287251 - 8292218)

SCO7498-SCO7503 (8308894 - 8318243)

SCO7507-SCO7509 (8320047 - 8325658) SCO7541 (8360751 - 8364910) SCO7542-SCO7547 (8363041 - 8372214) SCO7550-SCO7553 (8371680 - 8376652) SCO7569-SCO7572 (8391352 - 8398792)

SCO7579-SCO7580 (8401873 - 8405608)

SCO7583 (8406690 - 8410591) SCO7590-SCO7593 (8414439 - 8420851)

(8172361:8172378 +1 GGTCGCCTCCGGGTCGTA) (8200417:8200434 +1 GTTCACCCCCTTCCCACC) (8205422:8205439 -1 GCTCACCCGCCCGTCACG) (8209491:8209508 -1 GTGCTACCCGTGGTAACC) (8220618:8220635 -1 GGCCACCCCGCCGTCACC), (8222573:8222590 +1 GTTGGCCTTCTGGCCGCC) (8224771:8224788 +1 GGTCATCGCTGCTTCACA), (8226341:8226358 +1 GTCCATCTCCTGGACGCG), (8225714:8225731 +1 GTTCCTCGCTCGTCCACG) (8247680:8247697 -1 GTTCACCGCGTCGATGTC) (8247680:8247697 -1 GTTCACCGCGTCGATGTC) (8260804:8260821 +1 GTGCAACTGGTGGTCAGC) (8266035:8266052 -1 GGTCATCCTGCGCACATC) (8272307:8272324 -1 GTTCGCCTGCCAGTTGCC), (8271604:8271621 -1 GGTCGCCCCTCGTTCGTG) (8290186:8290203 +1 GTGCGCCGCCTGTTCACC), (8287512:8287529 -1 GGCCTCCCGGGGTTCACG) (8308914:8308931 -1 GTTCTTCACCCGGTCACC), (8315781:8315798 +1 GGTCCACTTCCGTCCAGC) (8321265:8321282 -1 GTCAACGCCTCGTTCACC) (8365642:8365659 +1 GTGCACGCACTGGTCAGG) (8373970:8373987 +1 GTTCACCCGGGCGCCAGC) (8397989:8398006 -1 GGTCACCGTCGGTTCGTC), (8393127:8393144 -1 GGTCACCGGCTCGCCGCG) (8403088:8403105 -1 GATCTCCTGCTGGTCGCG), (8404857:8404874 +1 GGTGACCCCGCAGTCGTC), (8402621:8402638 -1 GTTCTCCTGCCGTCCGTA) (8415024:8415041 -1 GTGTACGTCGTGGTCACC),

SCO7627 (8452968 - 8455549)

SCO7632-SCO7634 (8459001 - 8464857) SCO7644-SCO7646 (8470876 - 8475326) SCO7657 (8482781 - 8486538)

SCO7673-SCO7677 (8496424 - 8501978) SCO7679-SCO7681 (8500922 - 8507122)


SCO7697-SCO7700 (8531741 - 8539352)

SCO7719-SCO7722 (8552428 - 8557939)

SCO7728-SCO7729 (8562210 - 8565623)

SCO7738-SCO7739 (8572919 - 8576071) SCO7741-SCO7747 (8575308 - 8582234)

SCO7750-SCO7757 (8583197 - 8590100)

SCO7765-SCO7768 (8594004 - 8598980)

(8418434:8418451 +1 GTTCCCATTGTGGCAACG), (8417940:8417957 +1 GTCCACCCGGCCGTCGCG) (8453251:8453268 +1 GGTCACCCCCTCGCCGTC), (8453672:8453689 -1 GTTCACCGCCGAGCCGTC) (8459824:8459841 -1 GTTCAGCTCGGCGCCACC) (8485522:8485539 -1 GGTCAGTTCGCGTTCACC), (8483779:8483796 -1 GTGCGCGTTCTGGTCATC), (8483051:8483068 -1 GTTCCCGTCCGGGCCACC), (8482781:8482798 -1 GTTCAGCTCGGGGTAGCG) (8506044:8506061 +1 GGTCACCCCCTGCCAGTG), (8504781:8504798 -1 GGTCACCTCGTGGTGGTG), (8506178:8506195 -1 GTTCACATCGTAATCACA) (8514165:8514182 +1 GCCCACCCGCTGTTCACC) (8532575:8532592 +1 GTTCACCCCTCGGCCACG), (8529050:8529067 -1 GTTCTCCGCCGGGTCGGC) (8533388:8533405 -1 GTTCACCGTGCCCTCGCG), (8539250:8539267 -1 GTTCAGCCGGGGTCCGCG), (8532575:8532592 +1 GTTCACCCCTCGGCCACG) (8557051:8557068 -1 GGTCACCCCCTGGACCTC), (8556313:8556330 -1 GTTCGTATTCTCGACATC) (8564278:8564295 +1 GGTCTCCTCGTGGACAGC), (8564050:8564067 +1 GTTCAGCTGTGGGTCGCT) (8580643:8580660 -1 GGTCACGTACAGGTCATC), (8580322:8580339 +1 GTGCACCTGCCGGTCAGC) (8588137:8588154 -1 GTTCTCCTCCCAGACACG), (8583867:8583884 +1 GTTCGGACCGTCTTCAGC) (8598501:8598518 -1 GTCCACCTCCAGGTCAGC), (8596580:8596597 +1

SCO7774-SCO7776 (8601543 - 8605653)


SCO7807-SCO7814 (8626077 - 8635802)

SCO7817-SCO7818 (8635400 - 8639123) SCO7822-SCO7826 (8640685 - 8646791)

GGTCAAAGGCTCTTCAGT) (8604331:8604348 -1 GGTGAACCGTTGGCCATG), (8604947:8604964 +1 GTTCAGCATGCGTTCGTG), (8604598:8604615 +1 GTTCACCTGCGGGCTGGT), (8603683:8603700 +1 CGTCATCCAGTGGTCATG) (8613763:8613780 -1 GTTCATCCTGTGGTGACC) (8624750:8624767 +1 GGGCACCGCCTGTTCACC), (8624421:8624438 +1 GTTCACGTGGTGTGCAGC), (8627492:8627509 +1 GTTCTCCTCGCTGTCGCC) (8628655:8628672 +1 GTTCGCCGCCTGTTCGTC), (8633561:8633578 -1 ATTCCGCTGCCGGTCATC), (8627492:8627509 +1 GTTCTCCTCGCTGTCGCC) (8636786:8636803 -1 GTCTACCGGTGGTTCACC) (8645224:8645241 +1 GTTCACATATCGGTCGGT)

Table S3: Presence of putative PhoP boxes in the 5’ ends of genes that are enriched in the PhoP-ChIP study. This list represents the 417 genes from the significantly enriched ‘regions’ (Table S2) that contain at least two statistically significant ChIP-enriched probes within the 500 nt region centred on the start codon of the gene. The PSWM (Table S1) was used as input to the RSAT (http://rsat.ulb.ac.be/) matrix-scan tool (using default parameters and the S. coelicolor genome as a background model) to find all matching PhoP boxes. Matching motifs that are within each 500 nt sequence are indicated in this table. Nucleotide co-ordinates and sequences are from Accession No. AL645882.

Genes in which at least two significantly PhoP-ChIP-enriched probes are contained in the 500 bp centred around the annotated translational start codon, or start of a stable RNA gene (coordinates of gene) SCO0033 (28523 - 29023) SCO0106 (88823 - 89323) SCO0108 (89992 - 90492) SCO0165 (155870 - 156370) SCO0166 (156088 - 156588) SCO0219 (212301 - 212801) SCO0233 (222288 - 222788) SCO0255 (245422 - 245922) SCO0347 (351279 - 351779) SCO0434 (454296 - 454796) SCO0535 (567373 - 567873) SCO0551 (592059 - 592559) SCO0771 (820948 - 821448) SCO0772 (821045 - 821545) SCO0969 (1021759 - 1022259) SCO1009 (1063905 - 1064405) SCO1010 (1064608 - 1065108) SCO1020 (1076469 - 1076969) SCO1055 (1112775 - 1113275) SCO1078 (1138092 - 1138592) SCO1091 (1151022 - 1151522) SCO1092 (1151106 - 1151606) SCO1151 (1211159 - 1211659) SCO1152 (1211254 - 1211754) SCO1189 (1261871 - 1262371) SCO1209 (1281463 - 1281963) SCO1276 (1346443 - 1346943)

Location of a putative Pho box (tandem DRus) within the 500 bp sequence (Start of Pho Box : End of Pho Box, Strand, Sequence) (28895:28912 -1 GTTCACCCTCTCCTCATC),

(454710:454727 +1 TTCCACCTCGTCTTCACC), (592410:592427 +1 GTCCACCGTCTGGTCCTC),

(1022076:1022093 +1 GTTCAGATGGCGGTCGTG),

(1076842:1076859 +1 GGTCAACCGCCGGTAACC),

(1151445:1151462 +1 GTTCACCGGGAGTTCGGC), (1151445:1151462 +1 GTTCACCGGGAGTTCGGC),

SCO1327 (1402324 - 1402824) SCO1332 (1409472 - 1409972) SCO1333 (1409777 - 1410277) SCO1384 (1462631 - 1463131) SCO1389 (1468271 - 1468771) SCO1392 (1477222 - 1477722) SCO1393 (1479322 - 1479822) SCO1394 (1479536 - 1480036) SCO1438 (1535483 - 1535983) SCO1488 (1591833 - 1592333) SCO1565 (1675776 - 1676276)

SCO1566 (1676152 - 1676652) SCO1633 (1749038 - 1749538) SCO1640 (1755001 - 1755501) SCO1649 (1763802 - 1764302) SCO1676 (1796742 - 1797242) SCO1689 (1808125 - 1808625) SCO1694 (1816047 - 1816547) SCO1710 (1831547 - 1832047) SCO1748 (1868739 - 1869239) SCO1753 (1874375 - 1874875) SCO1754 (1875725 - 1876225) SCO1761 (1882850 - 1883350) SCO1791 (1916106 - 1916606) SCO1792 (1922519 - 1923019) SCO1793 (1922666 - 1923166) SCO1823 (1954133 - 1954633) SCO1826 (1956730 - 1957230) SCO1834 (1964401 - 1964901) SCO1835 (1964583 - 1965083) SCO1840 (1969142 - 1969642) SCO1841 (1969218 - 1969718) SCO1844 (1973467 - 1973967) SCO1845 (1973693 - 1974193) SCO1851 (1983772 - 1984272) SCO1881 (2014811 - 2015311)

SCO1903 (2036780 - 2037280) SCO1967 (2107867 - 2108367)

(1479727:1479744 -1 GTTCAACTGCCGTTCACC), (1479727:1479744 -1 GTTCAACTGCCGTTCACC),

(1676078:1676095 -1 GGTCTCCCGCTCGTCATG), (1675822:1675839 -1 GGTCACCGCGGGGCCAGC),

(1808554:1808571 +1 GGCCACGTCCTGGCCACC), (1831874:1831891 -1 GTCAACGTCTTGTTAACG),

(1876046:1876063 +1 GGTCACATTTTCGTCACA),

(1964855:1964872 +1 ATTCACTCACCGTTCAGT), (1964855:1964872 +1 ATTCACTCACCGTTCAGT),

(1973873:1973890 +1 GTTCATCTTCCGTTCACC), (1973873:1973890 +1 GTTCATCTTCCGTTCACC), (2014998:2015015 -1 ATTCCCCTGGCGTTCGCC), (2014827:2014844 +1 GTTCACGGCGTGGTTGGC), (2108317:2108334 +1

SCO1968 (2108159 - 2108659) SCO2013 (2155529 - 2156029) SCO2062 (2210928 - 2211428) SCO2064 (2214926 - 2215426) SCO2130 (2290142 - 2290642) SCO2197 (2364434 - 2364934) SCO2198 (2364655 - 2365155) SCO2202 (2367928 - 2368428) SCO2210 (2374069 - 2374569)

SCO2240 (2409881 - 2410381) SCO2311 (2481668 - 2482168) SCO2351 (2520950 - 2521450) SCO2370 (2538946 - 2539446) SCO2405 (2576678 - 2577178) SCO2428 (2602629 - 2603129) SCO2431 (2609619 - 2610119) SCO2446 (2629083 - 2629583) SCO2460 (2646400 - 2646900) SCO2494 (2687383 - 2687883) SCO2532 (2730182 - 2730682) SCO2566 (2769231 - 2769731) SCO2569 (2774249 - 2774749) SCO2594 (2810349 - 2810849) SCO2604 (2826033 - 2826533) SCO2627 (2854341 - 2854841) SCO2628 (2854556 - 2855056) SCO2639 (2870408 - 2870908) SCO2640 (2870586 - 2871086) SCO2650 (2882661 - 2883161) SCO2686 (2930589 - 2931089) SCO2687 (2930898 - 2931398) SCO2692 (2936562 - 2937062) SCO2724 (2971634 - 2972134) SCO2725 (2971979 - 2972479) SCO2738 (2986652 - 2987152) SCO2739 (2986846 - 2987346) SCO2740 (2986918 - 2987418) SCO2764 (3015568 - 3016068) SCO2765 (3015647 - 3016147) SCO2790 (3045896 - 3046396) SCO2791 (3046513 - 3047013)

ATTCAGCCTGTGGCCACT), (2108317:2108334 +1 ATTCAGCCTGTGGCCACT),

(2364791:2364808 +1 GGTCACGCCCGAGAAATC), (2364791:2364808 +1 GGTCACGCCCGAGAAATC), (2368195:2368212 -1 GGTCAACCGCCGGTCGCT), (2374188:2374205 +1 GTTCACCTACGGGCAACG), (2374177:2374194 +1 GGTAACACGGGGTTCACC),

(2602769:2602786 -1 ATTCACGCGCCGGCCACC),

(2687708:2687725 +1 GTCCACGTGTGCGTCATG),

(2854723:2854740 +1 GTTCGCCTCCGTTTCACT), (2854723:2854740 +1 GTTCGCCTCCGTTTCACT),

(3046764:3046781 +1

GTTCCGCTTCTTTTCAGC), SCO2811 (3070306 - 3070806) SCO2812 (3070398 - 3070898) SCO2818 (3077392 - 3077892) SCO2823 (3083810 - 3084310) SCO2853 (3111644 - 3112144) SCO2854 (3111748 - 3112248) SCO2884 (3138655 - 3139155) SCO2898 (3153459 - 3153959) SCO2915 (3165984 - 3166484) SCO2917 (3166546 - 3167046) SCO2921 (3171868 - 3172368)

SCO2927 (3179515 - 3180015) SCO2928 (3179641 - 3180141) SCO2971 (3231589 - 3232089) SCO3001 (3275058 - 3275558) SCO3002 (3275324 - 3275824) SCO3034 (3320766 - 3321266) SCO3040 (3327959 - 3328459) SCO3041 (3328072 - 3328572) SCO3060 (3353749 - 3354249) SCO3061 (3353834 - 3354334) SCO3067 (3360191 - 3360691) SCO3120 (3421808 - 3422308) SCO3121 (3421821 - 3422321) SCO3122 (3422159 - 3422659) SCO3123 (3423739 - 3424239) SCO3137 (3438377 - 3438877) SCO3152 (3453434 - 3453934) SCO3166 (3469209 - 3469709) SCO3172 (3477414 - 3477914) SCO3217 (3529022 - 3529522) SCO3262 (3611918 - 3612418) SCO3281 (3624609 - 3625109) SCO3282 (3624757 - 3625257) SCO3289 (3637344 - 3637844) SCO3331 (3683627 - 3684127) SCO3333 (3685091 - 3685591) SCO3350 (3709824 - 3710324) SCO3366 (3725189 - 3725689) SCO3373 (3738706 - 3739206) SCO3400 (3765564 - 3766064) SCO3421 (3787551 - 3788051) SCO3422 (3787864 - 3788364) SCO3423 (3787929 - 3788429)

(3077385:3077402 +1 GTTCGTGCTCTGTTCGTG), (3084174:3084191 -1 GTTAACCGGCTGTTGACC),

(3171851:3171868 +1 GTTCGCTTTGCGGACACC), (3172146:3172163 +1 GTTCGCCTACGGTACGTG),

(3738713:3738730 -1 GGCCACATCCCCTTCACC), (3787985:3788002 -1 CTTCGCCTCCCCTTCATC), (3787985:3788002 -1 CTTCGCCTCCCCTTCATC), (3787985:3788002 -1

CTTCGCCTCCCCTTCATC), SCO3425 (3789237 - 3789737) SCO3510 (3879253 - 3879753) SCO3518 (3887194 - 3887694) SCO3520 (3888622 - 3889122) SCO3541 (3911207 - 3911707) SCO3594 (3971043 - 3971543) SCO3595 (3972067 - 3972567) SCO3607 (3984896 - 3985396) SCO3662 (4043415 - 4043915) SCO3663 (4043608 - 4044108) SCO3664 (4043741 - 4044241) SCO3691 (4072131 - 4072631) SCO3731 (4105090 - 4105590) SCO3761 (4134746 - 4135246) SCO3807 (4186377 - 4186877) SCO3808 (4186559 - 4187059) SCO3851 (4237909 - 4238409) SCO3852 (4238115 - 4238615) SCO3856 (4241133 - 4241633) SCO3862 (4247831 - 4248331)

SCO3863 (4248017 - 4248517)

SCO3871 (4258743 - 4259243) SCO3878 (4269593 - 4270093) SCO3883 (4273782 - 4274282) SCO3924 (4317868 - 4318368) SCO3941 (4337393 - 4337893) SCO3942 (4337591 - 4338091) SCO3943 (4338896 - 4339396) SCO3946 (4342208 - 4342708) SCO3992 (4389294 - 4389794) SCO3999 (4393753 - 4394253) SCO4012 (4408588 - 4409088) SCO4013 (4408817 - 4409317) SCO4046 (4438947 - 4439447) SCO4067 (4456918 - 4457418) SCO4093 (4492461 - 4492961) SCO4119 (4524571 - 4525071) SCO4129 (4544061 - 4544561) SCO4132 (4545779 - 4546279) SCO4140 (4555281 - 4555781)

(3887379:3887396 +1 GTTCATGTCTACTTCATC),

(4072392:4072409 -1 GTTCTCGCCCTGGTTACC), (4105294:4105311 -1 GTTCACCCTGTGTGCACT),

(4248015:4248032 +1 GGTCAACTGCCCGTCGCC), (4248149:4248166 +1 ATTCGGGTGGTGTTCATC), (4248015:4248032 +1 GGTCAACTGCCCGTCGCC), (4248149:4248166 +1 ATTCGGGTGGTGTTCATC), (4258739:4258756 -1 GTTCACATCCTGTTAGCC),

(4337933:4337950 +1 GTTCTCCGGCTGTTCCGC),

(4492487:4492504 +1 GTCATCGTCGTGTTCATG),

SCO4142 (4557569 - 4558069) SCO4145 (4562039 - 4562539) SCO4156 (4573609 - 4574109) SCO4218 (4625725 - 4626225) SCO4228 (4632734 - 4633234) SCO4229 (4632949 - 4633449) SCO4240 (4646061 - 4646561) SCO4253 (4662669 - 4663169) SCO4280 (4694950 - 4695450) SCO4339 (4754040 - 4754540) SCO4340 (4754116 - 4754616) SCO4342 (4756611 - 4757111) SCO4343 (4757383 - 4757883) SCO4344 (4758310 - 4758810) SCO4345 (4758792 - 4759292) SCO4352 (4767434 - 4767934) SCO4353 (4768722 - 4769222) SCO4382 (4798362 - 4798862) SCO4403 (4821498 - 4821998) SCO4404 (4823221 - 4823721) SCO4419 (4836958 - 4837458) SCO4420 (4836976 - 4837476) SCO4421 (4837942 - 4838442) SCO4422 (4838077 - 4838577) SCO4425 (4842323 - 4842823) SCO4431 (4851602 - 4852102) SCO4432 (4851654 - 4852154) SCO4454 (4876375 - 4876875) SCO4455 (4876557 - 4877057) SCO4505 (4925703 - 4926203) SCO4506 (4925996 - 4926496) SCO4548 (4963811 - 4964311) SCO4583 (5004667 - 5005167) SCO4635 (5061349 - 5061849) SCO4677 (5108561 - 5109061) SCO4678 (5108674 - 5109174) SCO4679 (5109519 - 5110019) SCO4710 (5132234 - 5132734) SCO4711 (5132458 - 5132958) SCO4723 (5138718 - 5139218) SCO4800 (5224242 - 5224742)

(4557936:4557953 -1 GTTCACCCGGCGTTCATT),

(4633107:4633124 -1 GTTCACCTTGGAGCCAGG), (4633107:4633124 -1 GTTCACCTTGGAGCCAGG), (4646101:4646118 +1 CGTCACGTCGCGGTCACC),

(4754343:4754360 -1 GTTCACCCTCTCCCCACC), (4754343:4754360 -1 GTTCACCCTCTCCCCACC),

(4838211:4838228 -1 GATCACCCGTCGGTAAGC), (4838211:4838228 -1 GATCACCCGTCGGTAAGC), (4842738:4842755 -1 GTTCAGCGTTCGTTTATC),

(4964242:4964259 -1 GGCCACCCCGCGGTCACG), (5004815:5004832 -1 GGTCACGTTTCGATCACC), (5061348:5061365 -1 GTTGACCTTCTCCTTACC),

SCO4822 (5253435 - 5253935) SCO4823 (5253558 - 5254058) SCO4835 (5267384 - 5267884) SCO4836 (5267432 - 5267932) SCO4858 (5287604 - 5288104) SCO4873 (5303156 - 5303656) SCO4874 (5303469 - 5303969) SCO4876 (5307324 - 5307824) SCO4878 (5310106 - 5310606) SCO4879 (5310305 - 5310805) SCO4913 (5346944 - 5347444) SCO4916 (5350518 - 5351018) SCO4917 (5351698 - 5352198) SCO4948 (5384590 - 5385090) SCO4996 (5435819 - 5436319) SCO5063 (5502197 - 5502697) SCO5064 (5502196 - 5502696) SCO5100 (5540760 - 5541260) SCO5114 (5560164 - 5560664) SCO5177 (5625360 - 5625860) SCO5190 (5647497 - 5647997) SCO5300 (5772868 - 5773368) SCO5354 (5821965 - 5822465) SCO5365 (5834956 - 5835456) SCO5366 (5836523 - 5837023) SCO5396 (5865351 - 5865851) SCO5398 (5870213 - 5870713)

SCO5399 (5870363 - 5870863)

SCO5405 (5877634 - 5878134) SCO5423 (5894155 - 5894655) SCO5427 (5899442 - 5899942) SCO5430 (5902760 - 5903260) SCO5431 (5904149 - 5904649) SCO5432 (5904177 - 5904677) SCO5435 (5909441 - 5909941) SCO5444 (5922214 - 5922714) SCO5446 (5927110 - 5927610)

(5253625:5253642 +1 GTTCGGCTGCTGGCCGCC), (5253625:5253642 +1 GTTCGGCTGCTGGCCGCC),

(5287743:5287760 -1 GTTCACGTGCTGGACACC), (5303639:5303656 +1 ATTCGTCCATTGTTCACC), (5303639:5303656 +1 ATTCGTCCATTGTTCACC), (5310400:5310417 -1 GTTCACCGCGTGTCAAGG), (5310400:5310417 -1 GTTCACCGCGTGTCAAGG),

(5384621:5384638 -1 GTTCACCAGGCGTTCCTG),

(5773302:5773319 -1 GTTCATCTCCTGGGCGCG),

(5870524:5870541 -1 GGTATCCCGCCCGTCACC), (5870556:5870573 +1 AGTAAACCCTCGTTCACT), (5870524:5870541 -1 GGTATCCCGCCCGTCACC), (5870556:5870573 +1 AGTAAACCCTCGTTCACT),

(5903162:5903179 +1 GTTCACGTTCTCGCTGTC),

(5927524:5927541 -1

SCO5447 (5929492 - 5929992)

SCO5476 (5961845 - 5962345) SCO5484 (5971092 - 5971592) SCO5509 (5998018 - 5998518) SCO5518 (6011714 - 6012214) SCO5529 (6023419 - 6023919) SCO5533 (6028781 - 6029281) SCO5534 (6028930 - 6029430) SCO5578 (6078332 - 6078832) SCO5628 (6126810 - 6127310) SCO5632 (6132429 - 6132929) SCO5639 (6139045 - 6139545) SCO5641 (6140593 - 6141093) SCO5689 (6195139 - 6195639) SCO5692 (6201277 - 6201777) SCO5703 (6214088 - 6214588) SCO5728 (6246905 - 6247405) SCO5742 (6265351 - 6265851) SCO5743 (6265543 - 6266043) SCO5746 (6274973 - 6275473) SCO5755 (6292816 - 6293316) SCO5777 (6315098 - 6315598) SCO5809 (6352569 - 6353069) SCO5822 (6370756 - 6371256) SCO5833 (6384101 - 6384601) SCO5904 (6470624 - 6471124) SCO5907 (6474186 - 6474686) SCO5908 (6474267 - 6474767) SCO5909 (6474458 - 6474958) SCO5910 (6474697 - 6475197) SCO5921 (6489570 - 6490070) SCO5922 (6491192 - 6491692) SCO5999 (6575055 - 6575555) SCO6004 (6583812 - 6584312) SCO6032 (6622367 - 6622867) SCO6144 (6744520 - 6745020) SCO6145 (6744672 - 6745172) SCO6158 (6761176 - 6761676) SCO6159 (6761345 - 6761845) SCO6169 (6773220 - 6773720) SCO6180 (6784846 - 6785346)

GGTCACACGGCCTTCACA), (5929966:5929983 +1 GTTGACCGGGCGTTCACG), (5929977:5929994 +1 GTTCACGTTCGATAAACG),

(6246940:6246957 -1 GTTCACCTCGGAGTGGTC),

(6275182:6275199 +1 CGTCACTTCGTGTTCACG),

(6352806:6352823 -1 GGTCATCGCCCCGCCACT), (6370764:6370781 +1 GTTGCCGGTTTGTTCATG),

(6475108:6475125 +1 GTTCTCGCCCTGGACACG), (6489673:6489690 +1 GTTCACCTTCTGGCCTTC), (6491441:6491458 +1 TGTCATCCATCGTTCACG),

(6773668:6773685 -1 GTTCATGTGCTGTTCACG),

SCO6232 (6854451 - 6854951) SCO6235 (6859653 - 6860153) SCO6239 (6863025 - 6863525) SCO6265 (6890925 - 6891425) SCO6268 (6893772 - 6894272) SCO6271 (6898611 - 6899111)

SCO6303 (6963070 - 6963570) SCO6319 (6976602 - 6977102) SCO6396 (7063371 - 7063871) SCO6445 (7129255 - 7129755) SCO6473 (7163014 - 7163514) SCO6491 (7184431 - 7184931)

SCO6503 (7195513 - 7196013) SCO6534 (7226303 - 7226803)

SCO6546 (7243477 - 7243977) SCO6579 (7285563 - 7286063) SCO6612 (7334082 - 7334582) SCO6613 (7334206 - 7334706) SCO6614 (7334866 - 7335366) SCO6702 (7454758 - 7455258) SCO6808 (7570718 - 7571218) SCO6811 (7574013 - 7574513) SCO6812 (7574170 - 7574670) SCO6817 (7579153 - 7579653) SCO6819 (7582004 - 7582504) SCO6835 (7606401 - 7606901) SCO6836 (7606494 - 7606994) SCO6900 (7664750 - 7665250) SCO6978 (7746453 - 7746953) SCO7007 (7782197 - 7782697) SCO7008 (7782411 - 7782911) SCO7011 (7788854 - 7789354) SCO7018 (7799833 - 7800333) SCO7020 (7804868 - 7805368)

(6859655:6859672 +1 GGTCAGCGGTCGGTCGTG), (6863332:6863349 +1 GTTCCTCCTCCATTCACT),

(6898982:6898999 +1 GTCCATCCCGCGGTAATC), (6899053:6899070 -1 GGTAACCCCGGGGCAACC),

(7184645:7184662 +1 GTTCCCGTGCTGCTCATT), (7184630:7184647 +1 GTTCACGTGCCGCTCGTT), (7226744:7226761 +1 GTTGACCGTGCGTTCCTG), (7226346:7226363 +1 GTTCAGCTCCCAGCCGCC), (7243612:7243629 -1 GTTCAACTCCGGCCCAGG), (7334443:7334460 -1 GGTCACCCGGAGCTCACC), (7334443:7334460 -1 GGTCACCCGGAGCTCACC), (7334952:7334969 -1 GGTGACCCGCCGGTCACA), (7570997:7571014 -1 GATCACCCTGCGTCTATG),

(7746442:7746459 +1 GGTGACCCAGCGGTCGTC),

(7800193:7800210 +1 GGTCACCGTGCCTCCACA), (7804970:7804987 -1 CTTCAACCACGGTCAACC),

SCO7031 (7816804 - 7817304) SCO7047 (7836894 - 7837394) SCO7080 (7870269 - 7870769) SCO7101 (7891055 - 7891555) SCO7126 (7918311 - 7918811) SCO7135 (7928305 - 7928805) SCO7136 (7928492 - 7928992) SCO7171 (7968600 - 7969100) SCO7174 (7972387 - 7972887) SCO7180 (7981173 - 7981673) SCO7181 (7981367 - 7981867) SCO7218 (8021880 - 8022380) SCO7240 (8047175 - 8047675) SCO7253 (8064729 - 8065229) SCO7263 (8073032 - 8073532)

SCO7311 (8119233 - 8119733) SCO7339 (8154312 - 8154812) SCO7407 (8222099 - 8222599) SCO7450 (8265041 - 8265541) SCO7476 (8289218 - 8289718) SCO7500 (8312729 - 8313229) SCO7502 (8315465 - 8315965) SCO7547 (8369363 - 8369863) SCO7593 (8419236 - 8419736) SCO7627 (8453718 - 8454218) SCO7646 (8473804 - 8474304) SCO7686 (8521434 - 8521934) SCO7727 (8562808 - 8563308) SCO7728 (8562960 - 8563460) SCO7743 (8578235 - 8578735) SCO7744 (8578517 - 8579017) SCO7753 (8586250 - 8586750) SCO7754 (8586342 - 8586842) SCO7774 (8602293 - 8602793) SCO7781 (8608334 - 8608834) SCO7790 (8614370 - 8614870) SCO7804 (8624948 - 8625448) SCO7805 (8625261 - 8625761) SCO7811 (8630180 - 8630680) SCO7817 (8636992 - 8637492) SCO7818 (8637109 - 8637609) SCO7822 (8642388 - 8642888) SCO7823 (8642874 - 8643374) SCO7826 (8645541 - 8646041) rRNA1 (1468460 - 1468960) rRNA10 (3685272 - 3685772)

(7837182:7837199 -1 GGTCACCCCCTCGACGGC),

(8073104:8073121 +1 GTTGAACTGGTCTACACC), (8073093:8073110 -1 GTTCAACTTGCGTTCAGG), (8119219:8119236 -1 GATCACACCTTCTTCACG), (8222573:8222590 +1 GTTGGCCTTCTGGCCGCC),

(8315781:8315798 +1 GGTCCACTTCCGTCCAGC),

rRNA11 (3688479 - 3688979) rRNA12 (3690287 - 3690787) rRNA13 (4530400 - 4530900) rRNA14 (4532204 - 4532704) rRNA15 (4535428 - 4535928) rRNA17 (6271550 - 6272050) rRNA18 (6274753 - 6275253) rRNA2 (1471666 - 1472166) rRNA3 (1473473 - 1473973) rRNA4 (1916321 - 1916821) rRNA5 (1919545 - 1920045) rRNA6 (1921349 - 1921849) rRNA7 (3296500 - 3297000) tRNA_11 (2646683 - 2647183) tRNA_12 (2646954 - 2647454) tRNA_13 (2647032 - 2647532) tRNA_25 (3421977 - 3422477) tRNA_29 (3962861 - 3963361) tRNA_3 (1656102 - 1656602) tRNA_31 (4226597 - 4227097) tRNA_4 (1656213 - 1656713) tRNA_47 (4646281 - 4646781) tRNA_49 (5061066 - 5061566)

tRNA_5 (1656288 - 1656788) tRNA_50 (5061185 - 5061685)

tRNA_6 (1656396 - 1656896) tRNA_8 (1796916 - 1797416) tRNA_9 (2155636 - 2156136)

(6275182:6275199 +1 CGTCACTTCGTGTTCACG),

(1656191:1656208 -1 GGTCACCCGGGAGCCACC),

(5061348:5061365 -1 GTTGACCTTCTCCTTACC), (5061277:5061294 -1 GGTCGCCCGCCGTTCGCC), (5061348:5061365 -1 GTTGACCTTCTCCTTACC), (5061277:5061294 -1 GGTCGCCCGCCGTTCGCC),

Table S4. Significantly differentially expressed protein-coding genes: S. coelicolor MT1110 wild-type versus phoP mutant derivative at 30 h time point. Significance is based on Rank Products analysis and/or Welch T-test, following Benjamini and Hochberg correction (see Methods) with a cut-off pfp value of < 0.15 or p-value of < 0.05 respectively.

Gene SCO0069 SCO0117 SCO0131 SCO0140 SCO0144 SCO0187 SCO0222 SCO0224 SCO0228 SCO0253 SCO0260 SCO0261

average log2 ratio [WT/phoP ] 0.59 0.67 2.3 0.41 -0.76 0.58 -0.91 0.53 -0.86 0.53 -0.57 0.64

Corrected t-test pvalue 0.03 0.04 0.01 0.03 0.04 0.04 0.05 0.03 0.04 0.04 0.02 0.04

SCO0286 SCO0323 SCO0324 SCO0359 SCO0374 SCO0381

-0.67 0.85 2.02 0.61 -0.6 -1.96

0.04 0.03


-2.12 -1.54 -2.25 -1.7 0.49 0.74

0.01 0.01 0.03 0.04 0.04 0.04

SCO0448 SCO0457 SCO0464 SCO0484 SCO0505

0.3 0.25 0.56 0.61 -2.24

0.03 0.02 0.05 0.05 0.04

SCO0509

-0.56

0.03

SCO0534 SCO0546 SCO0555 SCO0560 SCO0573 SCO0579 SCO0605 SCO0616 SCO0657

0.84 -1.34 0.52 -1.65 0.52 0.37 0.52 -0.39 1.06

0.03 0 0.04 0.04 0.04 0.02 0.04 0.01 0.04

SCO0670 SCO0702 SCO0711

0.45 -2.56 0.98

0.02 0.04 0.05

Rank Products pfp value

0

0.1 0.05 0.03 0.04

Description (from EMBL accession AL645882) unknown possible oxidoreductase probable secreted protein possible merR-family transcriptional regulator unknown crtI probable phytoene synthase possible acetyltransferase unknown unknown probable tetR-family transcriptional regulator unknown probable acetyltransferase possible secreted peptidoglycan binding protein unknown possible secreted protein hypothetical protein putative ABC transport protein possible glycosyl transferase probable UDP-glucose/GDP-mannose family dehydrogenase (putative secreted protein) possible lipoprotein unknown possible glycosyl transferase putative membrane transport protein possible 50S ribosomal protein L32 putative transmembrane efflux protein pseudogene unknown possible integral membrane protein possible monooxygenase possible multi-domain protein (fragment) glpK2 glycerol kinase (ATP:glycerol 3phosphotransferase)(EC 2.7.1.30) possible beta-hexosaminidase (putative secreted protein) pyc pyruvate carboxylase possible membrane-bound oxidoreductase cpeB catalase/peroxidase conserved hypothetical protein possible sugar-phosphate isomerase probable araC-family transcriptional regulator hypothetical protein gvpS2 possible gas vesicle synthesis protein glpD glycerol-3-phosphate dehydrogenase (EC 1.1.99.5) possible regulator hypothetical protein


0.75 -0.31 0.71 -3.15 0.81 0.8 0.46 0.67 -0.39

0.03 0.05 0.05

SCO0895 SCO0917 SCO0919 SCO0921 SCO0926 SCO0929 SCO0951 SCO0955 SCO0971 SCO0983 SCO0984 SCO0987 SCO1020 SCO1050 SCO1077

0.24 0.49 2.31 1.72 0.32 -0.95 0.35 -2.15 -0.49 0.47 0.71 0.74 -0.51 -0.94 0.73

0.04 0.01

SCO1081

-1.47

0.01

SCO1082 SCO1087 SCO1113 SCO1114 SCO1121 SCO1123 SCO1148 SCO1160 SCO1182 SCO1189

-1.24 -1.43 -1.37 -2.09 -1.51 -0.77 0.59 -0.62 -0.58 -3.03

0.02 0.03 0.02 0.05 0.05 0.03 0.04 0.03 0.01


0.3 1.66 0.54 0.33 0.77 -0.21

0.01

SCO1336

0.46

0.04

SCO1346 SCO1354 SCO1358 SCO1361 SCO1378 SCO1411 SCO1430 SCO1439

-0.84 0.84 0.76 0.41 -1.22 0.63 -0.89 -1.59

0.02 0.04 0.05 0.03 0.03 0.03 0.04 0.05

SCO1441

-1.52

0.05

0.1 0.05 0.05 0.04 0.02 0.05

0.1 0.1 0.04 0.04 0.04 0.04 0.03 0.05 0.03 0.03 0.04 0.05 0.05

0.1 0.1 0.03 0.02 0.03 0.04

unknown possible glycosyl transferase probable transcriptional repressor possible secreted protein unknown possible membrane protein probable transmembrane transport protein probable oxidoreductase hrdC RNA polymerase principal sigma factor HrdC possible oxygenase unknown hypothetical protein hypothetical protein hypothetical protein probable transport system permease protein unknown probable lysR-family trancsriptional regulator aceB2 malate synthase possible 3-hydroxyacyl-CoA dehydrogenase possible integral membrane protein conserved hypothetical protein possible DNA protection protein probable sugar kinase probable electron transfer flavoprotein alpha subunit probable electron transfer flavoprotein beta subunit probable aldolase conserved hypothetical protein ung uracil DNA glycosylase possible secreted protein unknown probable ABC transporter cvnA3 possible membrane protein hypothetical protein unknown probable aminotransferase (putative secreted protein) hypothetical protein conserved hypothetical protein conserved hypothetical protein probable hydrolase unknown possible lipoprotein N-acyltransferase (integral membrane) fabG3 possible 3-oxoacyl-[acyl-carrier protein] reductase possible secreted protein possible LysR-family transcriptional regulator conserved hypothetical protein probable glycine dehydrogenase possible transmembrane transport protein possible TetR-family transcriptional regulator hisE phosphoribosyl-ATP pyrophosphatase ribAB34-dihydroxy-2-butanone 4-phosphate synthase

SCO1448 SCO1476 SCO1479

0.73 -2.47 -1.22

0.03 0.04 0.03


-1.83 -2 -1.74 -0.98 -1.16 -0.27

0.03 0.02 0.05 0.04 0.02 0.04

SCO1565 SCO1566 SCO1591 SCO1597 SCO1626 SCO1627 SCO1628 SCO1632 SCO1666 SCO1694 SCO1697 SCO1729 SCO1739 SCO1740 SCO1749 SCO1773 SCO1812

2.14 -0.45 -1.2 0.21 -2.06 -3.26 -3.11 -1.52 -0.75 0.39 0.46 0.72 0.17 0.72 -1.25 -2.92 0.35

SCO1814 SCO1820

-1.37 -1

0.04 0.04

SCO1821 SCO1826 SCO1829 SCO1836 SCO1890 SCO1901 SCO1906 SCO1916 SCO1921 SCO1945 SCO1957 SCO1968 SCO1980 SCO1981

-0.83 0.43 -1.72 -0.73 0.57 0.23 1.37 -1.29 -1.11 -1.56 0.31 2.3 -2.19 -1.18

0.04 0.05 0.04 0.05 0.03 0.05 0.05 0.04 0.04 0.04 0.04

SCO2008

-1.69

0.02

SCO2010

-1.4

0

SCO2012

-1.04

0.05

SCO2013 SCO2029 SCO2046

-0.67 0.49 0.44

0.05 0.03 0.03

SCO2073

-0.78

0.04

0.1 0.05 0.02 0.02 0.03 0.1 0.1 0.04 0.02 0.05 0.04 0.03 0.01 0.04 0.05 0.1 0

0 0.05 0.02

probable transport protein metK S-adenosylmethionine synthetase probable guanylate kinase pyrA carbamoylphosphate synthetase large chain pyrC dihydroorotase possible integral membrane protein secF protein-export membrane protein probable aminotransferase possible phosphatase probable glycerophosphoryl diester phosphodiesterase (fragment) possible acyltransferase probable 3-hydroxyacyl-CoA dehydrogenase probable rRNA methylase possible cytochrome P450 cvnD9 probable ATP-GTP binding protein cvnC9 hypothetical protein hypothetical integral membrane protein possible phosphatase possible penicillin acylase probable merR-family transcriptional regulator hypothetical protein probable DNA polymerase III alpha chain possible membrane protein conserved hypothetical protein probable L-alanine dehydrogenase possible integral membrane transporter inhA probable enoyl-(acyl-carrier-protein) reductase possible integral membrane protein moaA molybdenum cofactor biosynthesis protein A possible membrane protein possible membrane protein possible stress-like protein probable transcriptional regulator probable zinc-binding dehydrogenase putative secreted protein possible transferase possible aminotransferase tpiA triosephosphate isomerase probable fructokinase probable secreted hydrolase hypothetical protein hypothetical protein possible branched chain amino acid binding protein probable branched chain amino acid transport permease probable branched chain amino acid transport ATP-binding protein probable two-component system response regulator putative secreted protein possible integral membrane efflux protein possible ribosomal large subunit pseudouridine synthase

SCO2094

-0.68

0.03


-1.59 -0.57 -2.7 -2.86 -2.42 -1.89 -0.85 -4.17 0.98 -2.78 -3.73 0.92 -3.61 -1.57

0.05 0.03 0.04 0.04 0.02 0.03 0.05


-1.22 2.01 0.46 0.34 0.15 2.09 -0.61 0.33

0.04 0.04 0.05 0.04 0.04

SCO2388 SCO2393 SCO2408 SCO2475

-1.16 0.5 -1.04 0.25

0.03 0.05 0.04 0.04

SCO2482 SCO2487 SCO2492 SCO2503

0.55 -0.34 -0.58 0.43

0.04 0.05 0.05 0.02


-2.6 -2.64 -0.55 -0.82 0.6

0.05 0.05 0.05 0.01 0.04

SCO2585 SCO2588 SCO2592 SCO2593 SCO2594 SCO2607 SCO2614

-0.82 0.72 -2.6 -2.11 -2.66 -0.97 -0.75

0.03 0.04 0.02 0.05 0.05 0.03 0.03


-1.79 -2.19 0.47 0.41 0.66 0.76 0.45 -1.31

0.02 0.04 0.02 0.02 0.05 0.02 0.04 0.05

0.1

0 0.01 0.04 0.02 0.03 0.05 0.04

0.1 0 0

0.1

0.1 0.03 0.04

possible regulatory protein aroH probable 2-dehydro-3deoxyphosphoheptonate aldolase conserved hypothetical protein qcrB cytochrome B subunit qcrA Rieske iron-sulfur protein cox3 cytochrome c oxidase subunit III possible integral membrane protein probable kinase glnA glutamine synthetase I hypothetical protein hypothetical secreted protein glnII glutamine synthetase II possible reductase probable secreted protein malE putative maltose-binding protein probable ABC transporter ATP-binding component possible alkaline phosphatase possible integral membrane protein possible integral membrane protein unknown putative secreted protein unknown doubtful CDS possible secreted protein fabH 3-oxoacyl-[acyl-carrier-protein] synthase III probable aldose 1-epimerase possible aminotransferase probable lysR-family transcriptional regulator possible dehydrogenase (putative secreted protein) nirB probable nitrite reductase large subunit possible membrane protein probable chitinase precursor possible two-component system response regulator probable membrane protein unknown Era-like GTP-binding protein possible glucarate dehydratase proA gamma-glutamyl phosphate reductase (EC 1.2.1.41) possible integral membrane protein possible transferase unknown hypothetical protein sfr Sfr protein fpgS folylpolyglutamate synthase clpX ATP dependent Clp Protease ATP binding subunit probable sugar-phosphate isomerase possible ATP-binding protein ribD riboflavin-specific deaminase possible integral membrane protein possible membrane protein possible long-chain fatty acid ligase improbable CDS predicted by HMM

SCO2743 SCO2786 SCO2878 SCO2882 SCO2915 SCO2940 SCO2962 SCO2964 SCO2969 SCO2971 SCO2982 SCO2987 SCO2997 SCO3023 SCO3033 SCO3050 SCO3057 SCO3058 SCO3081 SCO3095 SCO3101 SCO3108 SCO3140 SCO3145

-0.36 -0.51 2.35 -1.31 -1 -0.63 -0.85 0.47 -0.77 -1.73 0.65 0.83 0.47 -3.52 -0.21 -2.45 0.75 -1.06 -0.71 -0.28 -1.73 -1.44 0.17 -0.73

0.05 0.03 0.04 0.03 0.04 0.05 0.03 0.05 0.04 0.02 0.04 0.04 0.04

SCO3181 SCO3201 SCO3204 SCO3208 SCO3209 SCO3217 SCO3219 SCO3288 SCO3289 SCO3310 SCO3345 SCO3346 SCO3369 SCO3373 SCO3434 SCO3441 SCO3459 SCO3517 SCO3538 SCO3588 SCO3592 SCO3612 SCO3617 SCO3622 SCO3629 SCO3632 SCO3637 SCO3648 SCO3655 SCO3683 SCO3697 SCO3722 SCO3723

0.35 0.93 0.38 0.2 0.67 -1.43 0.35 -3.37 -3.05 -0.84 -1.24 0.55 0.19 -1.57 0.54 0.59 0.91 0.46 -1.52 0.45 0.54 0.45 -1.91 -0.8 -1.69 0.73 0.74 0.52 0.65 0.6 0.76 0.54 0.7

0.05 0.05 0.03 0.05 0.04 0.02 0.02 0.03

0

0 0.02 0.05 0.04 0.05 0.05 0.05 0.05 0.02 0.03 0.05

0.01 0.02 0.04 0.04 0.01 0.04 0.05 0.04 0.04 0.05 0.03 0.05 0 0.04 0.04 0.05 0.05 0.05 0.01 0.02 0.05 0.02 0.03 0.03

0 0.1

hypothetical protein hexA beta-N-acetylhexosaminidase precursor unknown cvnD12 possible ATP/GTP-binding protein hypothetical protein possible oxidoreductase possible bi-functional transferase/deacetylase probable lysR-family transcriptional regulator ftsE cell division ATP-binding protein possible secreted protein possible glycosyl transferase possible regulatory protein possible transferase sahH adenosylhomocysteinase possible integral membrane regulatory protein unknown possible dipeptidase possible dipeptidase unknown putative membrane protein possible lipoprotein conserved hypothetical protein possible membrane protein possible secreted protein moeA probable molybdopterin biosynthesis protein. probable tetR-family transcriptional regulator unknown possible secreted protein possible transcriptional regulator cdaR transcriptional activator protein possible lipase (putative secreted protein) possible integral membrane protein possible large membrane protein hypothetical protein ilvD dihydroxy acid dehydratase possible transcriptional regulator possible large ATP-binding protein ClpC-family ATP-binding protease partial CDS possible DNA polymerase I putative secreted protein hypothetical protein possible ATP-binding protein unknown unknown possible membrane protein possible membrane protein hypothetical protein probable aminotransferase purA probable adenylosuccinate synthetase hypothetical protein putative membrane protein probable transmembrane efflux protein possible spermidine synthase putative membrane protein possible oxidoreductase possible transcriptional regulator possible regulatory protein (fragment)

SCO3734 SCO3770 SCO3772 SCO3779 SCO3782 SCO3785 SCO3790 SCO3796 SCO3797 SCO3812 SCO3820 SCO3848 SCO3855 SCO3893 SCO3954 SCO3961

0.94 0.66 0.95 0.39 0.39 0.8 1.72 0.72 0.83 0.65 -0.47 -1.31 -0.87 -0.84 0.55 -1.15

0.02 0.05 0.04 0.01 0.04 0.01

SCO4021 SCO4024 SCO4034

0.8 0.69 -1.42

0.05 0.01 0.04


-0.98 0.87 0.35 0.36 -1.05

0.01 0.02 0.02 0.05 0.04

SCO4140

1.76

0.1


2.11 4.68 0.48 0.69 -0.98 0.88

0.1 0 0.05 0.05 0.03 0.05


1.87 1.65 2.47 -1.72 -1.29 -1.59 -2.31

0.05 0.03 0 0.04 0.05 0.01


0.68 0.27 0.5 -1.69 0.4 0.42 -1.27

0.03 0.02 0.03 0.03 0.04 0.04 0.02


0.15 -2.36 0.88 0.64 1.61 -1.16

0.03 0.03 0.03 0.05

0.1 0.02 0.04 0.03 0.01 0.03 0.05 0.02 0.05 0.05

0.1 0.1 0

0.1 0.01

hypothetical protein probable cytochrome P450 oxidoreductase possible secreted protein probable nucleoside hydrolase possible regulatory protein possible integral membrane protein conserved hypothetical protein hypothetical protein possible integral membrane protein probable gntR-family transcriptional regulator probable serine/threonine protein kinase possible serine/threonine protein kinase possible membrane protein hypothetical protein putative oxidoreductase serS Seryl-tRNA synthase probable two component system histidine kinase probable integral membrane efflux protein probable RNA polymerase sigma factor purM phosphoribosylformylglycinamidine cyclo-ligase (EC 6.3.3.1) possible MerR family transcriptional regulator possible oxidoreductase partial CDS unknown partial CDS possible ATP/GTP-binding protein pstA phosphate ABC transport system permease protein pstC phosphate ABC transport system permease protein pstS phosphate-binding protein precursor conserved hypothetical protein possible secreted protein unknown unknown phoU, probable phosphate transport system regulatory protein phoR, sensor kinase phoP, response regulator possible hydrolytic protein possible hydrolytic protein possible hydrolytic protein possible response regulator probable N-acetylglucosamine-6-phosphate deacetylase possible sugar kinase hypothetical protein probable threonine synthase probable oxidoreduxtase hypothetical protein possible lipoprotein probable two component system response regulator possible phosphoserine aminotransferase possible mut-like protein possible integral membrane transport protein possible lipoprotein possible RNA polymerase sigma factor

SCO4431 SCO4434 SCO4435 SCO4442

-0.55 0.59 0.6 -4.44

0.04 0.05 0.01

SCO4480 SCO4495

0.47 0.79

0.04 0.05

SCO4501

0.56

0.01


0.46 -1.52 -1.8 -2.5 -2.11 -1.45 -1.86 -2.34 -3.02 -1.81 -1.52 -0.75 -1.13 0.39 0.7

0.02 0.05 0.05 0.04 0.03 0.04 0 0.03


-1.49 -0.43 -1.49 -1.27 -0.78 0.32 -2.22 -0.78 0.58 -0.82 1.54 1.66 1.41 2.13

0.04 0.04 0.05 0.04 0.04 0.02 0.04 0.03 0.03 0.03 0.02 0.04 0.02

SCO4881 SCO4891 SCO4895 SCO4922

2.95 0.68 -0.69 0.42

SCO4926 SCO4937 SCO4972 SCO4973 SCO4978 SCO4979 SCO4988 SCO4992 SCO5018 SCO5042 SCO5071

-1.63 0.48 0.32 0.58 -1.62 -3.24 0.53 -1.73 -0.93 -0.24 -1.33

0

0.1 0.02 0.04 0.05 0.05 0.03 0.02

0.1 0.1 0

0.02 0.05 0.05 0.04 0.05 0.04 0.04 0.02 0.1 0.01 0.01 0.04 0.04 0.04

possible integral membrane protein probable LysR-family transcriptional regulator unknown hypothetical protein possible tetR-family transcriptional regulatory protein possible DNA polymerase related protein probable bifunctional protein (ketoreductase/3oxoacyl-[acyl-carrier protein] reductase) possible secreted hydrolase possible electron transfer oxidoreductase nuoA NADH dehydrogenase subunit nuoC NADH dehydrogenase subunit nuoF NADH dehydrogenase subunit nuoG NADH dehydrogenase subunit nuoH NADH dehydrogenase subunit nuoJ NADH dehydrogenase subunit nuoK NADH dehydrogenase subunit nuoM NADH dehydrogenase subunit nuoN NADH dehydrogenase subunit nuoM2 NADH dehydrogenase subunit unknown traB1 possible sporulation-related protein possible hydrolase guaB inosine 5' monophosphate dehydrogenase pkaD protein serine/threonine kinase guaA GMP synthase probable ATP-dependent DNA helicase II icmB isobutyryl CoA mutase small subunit unknown sucD succinyl CoA synthetase alpha chain purH bifunctional purine biosynthesis protein possible GntR-family regulator mutA2 methylmalonyl CoA mutase unknown possible integral membrane protein possible glycosyltransferase possible transferase possible polysaccharide biosynthesis related protein putative secreted protein possible ECF sigma factor possible integral membrane protein pccB propionyl-CoA carboxylase complex B subunit hypothetical protein possible dehydrogenase conserved hypothetical protein conserved hypothetical membrane protein probable phosphoenolpyruvate carboxykinase probable carbohydrate kinase unknown possible integral membrane protein fumC fumarate hydratase C ORFA hydroxylacyl-CoA dehydrogenase

SCO5074 SCO5077 SCO5078 SCO5079

-3.1 -1.88 -1.7 -1.72

0.05 0.04 0.01 0.04

SCO5088 SCO5109 SCO5177 SCO5185 SCO5197 SCO5202 SCO5214 SCO5224 SCO5243 SCO5249 SCO5275 SCO5284 SCO5311 SCO5316 SCO5355 SCO5385 SCO5414 SCO5444 SCO5447

-1.13 -1.44 -1.31 -1.15 -0.87 -0.58 -1 0.43 -1.48 -0.78 -0.95 0.62 -1.22 0.54 -1.44 -1.19 -2.65 -2.48 -1.32

0.05 0.04 0.03 0.03 0.05 0.04 0.05 0.04 0.04 0.02 0.04 0.01 0.03 0.03 0.03 0 0 0.02 0.03

SCO5476

-2.31

0.05

SCO5479 SCO5493 SCO5494 SCO5507 SCO5512 SCO5513 SCO5514 SCO5515 SCO5539 SCO5540 SCO5541 SCO5580 SCO5581 SCO5583 SCO5584 SCO5586 SCO5597 SCO5608 SCO5626 SCO5648 SCO5662

-1.96 -0.63 -1.59 -1.02 -1.73 -1.94 -2.04 -1.84 -1.61 -1.54 -0.97 -1.61 0.24 -2.69 -3.01 -1.11 -0.57 -0.92 -1.15 0.23 -0.72

0.05 0.05 0.03 0.05 0.03 0.05 0.02 0.05 0.04 0.03 0.03 0.04 0.04 0.05 0.04 0.03 0.03 0.04 0.05 0.01 0.03


-2.18 0.63 -0.93 0.62 -0.86 0.61 -1.12 -1.07 3.01

0.05 0.05 0.04 0.02 0.02 0.03 0.05 0

0.1

0.1 0.1

0

possible dehydratase actVA2 hypothetical protein actVA3 hypothetical protein actVA4 conserved hypothetical protein actI ORF2 actinorhodin polyketide betaketoacyl synthase beta subunit unknown unknown possible peptidase conserved hypothetical protein possible secreted protein hypothetical protein probable araC-family transcriptional regulator sig1 RNA polymerase sigma factor possible nucleotide-binding protein possible ATP/GTP binding protein hypothetical protein possible secreted protein acyl carrier protein thrC threonine synthase possible 3-hydroxybutyryl-coA dehydrogenase putative membrane protein glgP possible glycogen phosphorylase probable neutral zinc metalloprotease probable oligopeptide transport integral membrane protein probable oligopeptide ABC transporter ATPbinding protein unknown ligA probable DNA ligase unknown ilvB acetolactate synthase ilvN acetolactate synthase small subunit ilvC acetohydroxy acid isomeroreductase serA D-3-phosphoglycerate dehydrogenase cvnB2 unknown cvnA2 unknown cvnD1 probable ATP /GTP binding protein ftsY prokaryotic docking protein hypothetical protein amt ammonium transporter glnB nitrogen regulatory protein P-II ffh signal recognition particle protein sip2 probable signal peptidase I unknown prophage gene pyrH uridylate kinase probable ABC transporter ATP binding protein possible adenosine deaminase gabT probable 4-aminobutyrate aminotransferase possible glycosyl transferase probable acyl CoA dehydrogenase possible lipoprotein probable riboflavin kinase (FAD synthetase) possible peptide transport ATP-binding protein possible secreted serine protease unknown unknown


-0.28 -3.1 -0.32 -1.51 0.31 -0.45 0.38 -1.15

0.05 0.02 0.01 0.03 0.04 0.03 0 0.04


-0.47 -3.62 -2.52 -2.95 -2.3 -1.92 -2.69 -3.72

0.02

SCO5886 SCO5887

-2.81 -3.91

SCO5888 SCO5889

-3.36 -5.29

0.05

0 0


-3.7 -4.41 -3.54 -4.72 -4.24 -4.82

0.04 0.04

0 0 0 0 0 0


-4.69 -4.64 -4.18 -3.76 -0.67 0.97

0.03 0.04 0.02 0.03 0.04 0.05


0.7 0.39 0.98 0.23 -0.22 0.83 -2.01

0.04 0.05 0.04 0.04 0.04 0 0.02


-1.26 -1.32 -0.38 0.47 -2.72 -2.12 -0.74 -0.94

0.05 0.05 0.03 0.02 0.02 0.01 0.04 0.03

0.1

0 0.02 0.1 0.04 0.04 0.05 0.03

0.1 0 0.1 0

0 0.04

0 0 0 0

0.1

probable ATP dependent DNA helicase recA recombinase A putative secreted protein gyrB2 DNA gyrase subunit B probable transcriptional regulator unknown unknown unknown suhB probable extragenic suppressor protein partial CDS redD transcriptional regulator redW acyl-coa dehydrogenase redY unknown function redZ response regulator partial CDS redU unknown unknown putative membrane protein redR probable 3-oxoacyl-[acyl-carrier-protein] synthase II redQ probable acyl carrier protein redP probable 3-oxoacyl-[acyl-carrier-protein] synthase III redO unknown redN putative 8-amino-7-oxononanoate synthase redM probable peptide synthase redL probable polyketide synthase redK probable oxidoreductase redJ probable thioesterase redI possible methyltransferase redH probable phosphoenolpyruvate-utilizing enzyme partial CDS fasta scores; opt: 349 zscore: 372.1 E(): 1. 6e-13 33.3% identity in 165 aa overlap redG probable oxidase redF probable membrane protein unknown probable transcriptional regulator possible sigma factor putative membrane protein Gly- Ala-rich protein 26.6% identity in 413 aa overlap. Contains possible hydrophobc membrane spanning regions probable transmembrane transport protein possible integral membrane protein unknown possible cyclase possible integral membrane protein cysD sulfate adenylyltransferase subunit 2 cysH phosphoadenosine phosphosulfate reductase probable nitrite/sulphite reductase possible AraC family transcriptional regulator hypothetical protein unknown probable acetyl-coenzyme A synthetase possible secreted protein probable catalase


-0.37 0.7 -0.6 1.23 1.85 3.03 3.21 2.24

0.05 0.01 0.05 0.04

SCO6279

2.56

SCO6282 SCO6283 SCO6284 SCO6286 SCO6288 SCO6289 SCO6291 SCO6388 SCO6414 SCO6415 SCO6416 SCO6419 SCO6448 SCO6449 SCO6458 SCO6502 SCO6503 SCO6504 SCO6532 SCO6567 SCO6569 SCO6570 SCO6571 SCO6587 SCO6588 SCO6606 SCO6621 SCO6623 SCO6626 SCO6649 SCO6650 SCO6654 SCO6657 SCO6691 SCO6695 SCO6722 SCO6729

4.33 2.93 1.94 2.32 1.33 0.93 0.7 2.84 -1.22 -1 -0.99 -0.75 -1.05 -1.1 0.69 -1.28 -1.16 -1.52 -0.35 -1.24 -2.18 -1.49 -1.75 0.4 0.66 -1.16 -0.77 -1.21 -0.42 0.82 -2.76 -1.04 0.43 1.05 -0.36 -2.22 0.34

0.04


-0.41 -0.66 -1.02 0.47 -1.44

0.02 0.04 0.04 0.01 0.01

SCO6832 SCO6847 SCO6927

-0.99 0.07 -1.07

0.05 0.02 0.05

0.1 0 0 0.1 0 0 0 0.1 0

0.04 0.03 0.04 0.1 0.01 0.05 0.03 0.04 0.05 0.02 0.03 0.03 0.04 0.05 0.05 0.05 0.02 0.04 0.04 0.05 0.03 0.03 0.03 0.02 0.02 0.05 0.1 0.03 0.03 0.02 0.02 0.05 0.04

probable permease probable transport protein scbA possible histidine kinase orfB probable type I polyketide synthase possible secreted protein possible epoxide hydrolase possible integral membrane transport protein probable diaminobutyrate-pyruvate aminotransferase probable 3-oxoacyl-[acyl-carrier protein] reductase conserved hypothetical protein probable decarboxylase possible regulatory protein probable regulatory protein probable secreted oxidoreductase probable secreted oxidase unknown possible hydrolase probable dihydropyrimidinase unknown unknown AraC-like transcriptional regulator possible dehydrogenase unknown gvpG probable gas vesicle synthesis protein unknown unknown narI probable nitrate reductase gamma chain; ABC transporter ATP binding protein probable secreted solute binding protein possible oxidoreductase possible DNA-binding protein probable dehydrogenase unknown unknown unknown probable ATP/GTP binding protein unknown unknown unknown unknown putative membrane protein probable phospholipase C partial CDS possible membrane protein possible regulator putative membrane protein possible fatty acid oxidative multifunctional enzyme probable polyprenyl synthatase probable transketolase probable zinc-binding alcohol dehydrogenase kbl 2-amino-3-ketobutyrate coenzyme A ligase mutA methylmalonyl-CoA mutase (EC 5.4.99.2) unknown unknown


-1.74 -1 -3.22 -4.54 -0.96 -1.66 -3.16 -0.92 -2.07 -1.07

0.04 0.02 0.04


-0.46 -0.14 -0.57 0.34 -1.64 0.33 0.27 -0.64

0.01 0.02 0.03 0.04 0.01 0.03 0.03 0.02

SCO7217

0.26

0.02


-0.85 -0.97 -1.1 -1.23 -0.57 -0.53 -0.63 -0.42 -0.39 0.74 0.77 0.49 0.96 0.72 0.29

0.04 0.04 0.03 0.05 0.05 0.05 0.04 0 0.05 0.03 0.02 0.04 0.04 0.04 0.05

SCO7438 SCO7443 SCO7445 SCO7460

0.41 -0.64 0.5 -0.26

0.04 0.04 0.01 0.03


-0.85 0.5 0.35 0.49 -0.27 -1.12 -0.92 -0.79 0.24 -1.24 -1.72 0.54 -1.29 0.33 0.69

0.03 0.04 0.03 0.02 0.04 0.05 0.05 0.04 0.04 0.03 0.03 0.03 0 0.02 0.05

0.1 0

0.01 0.04 0.1 0.05 0.01 0.02

possible O-methyltransferase unknown unknown unknown cvnC8 unknown conserved hypothetical protein unknown unknown unknown absR1 regulatory protein possible LacI-family transcriptional regulatory protein probable delta fatty acid desaturase possible phospholipase probable hydroperoxide resistance protein ilvC2 ketol-acid reductoisomerase conserved hypothetical protein unknown hypothetical protein possible iron transport protein ATP-binding component ctaD cytochrome C oxidase polypeptide I (EC 1.9.3.1) unknown probable ion channel subunit hypothetical protein unknown possible TetR-family regulator probable RNA polymerase sigma factor unknown partial CDS possible transmembrane transport protein possible secreted serine protease possible dehydrogenase pseudogene possible integral membrane protein unknown hmpA1 possible flavohemoprotein probable aldehyde dehydrogenase possible LysR-family transcriptional regulatory protein pgm phosphoglucomutase (EC 5.4.2.2) unknown possible lipoprotein possible phenylacetic acid degradation protein PaaB putative extracellular solute-binding protein possible regulatory protein putative integral membrane protein putative membrane protein hypothetical protein probable merR-family transcriptional regulator katA2 catalase possible transcriptional regulator possible DNA-binding protein hypothetical protein probable monooxygenase conserved hypothetical protein (fragment) possible lysR-family transcriptional regulator conserved hypothetical protein


0.28 -1.35 -2.94 0.62 0.39 1.94 -0.91 -0.2 1.41 -0.67

0.03 0.05 0.1 0.03 0.04 0.03 0.04 0.03 0.03 0.04

0.1

possible secreted hydrolase possible oxidoreductase possible secreted protein possible oxidoreductase conserved hypothetical protein probable secreted hydrolase hypothetical protein hypothetical protein possible oxidoreductase unknown