TABLE 2.
CRPMt binding sites at the intergenic region of the M. tuberculosis H37Rv genome
| Probabilitya | Sampling frequencyb | Site sequence | Genomic coordinates | Flanking gene(s)c | Distance(s) upstreamd |
|---|---|---|---|---|---|
| 0.92 | 1.00 | CAGGTCACACCAGTCACAGA | 1571-1590 | Rv0002 (dnaN) | −462 |
| 0.98 | 1.00 | CACGTCAGCAAAGTCACGAT | 23788-23807 | Rv0019c | −51 |
| 0.97 | 0.69 | ACCGTGAATCTGGCGACGCC | 161521-161540 | Rv0134 (ephF) | −229 |
| 0.59 | 1.00 | AATGTGATCCTCTTCGCGTG | 301656-301675 | Rv0249c | −3 |
| 0.92 | 1.00 | ACGGTCGCAACAGTCACATG | 309913-309932 | Rv0256c (PPE2) | −368 |
| 0.99 | 0.91 | CGCGTCGCAGGATTCACACT | 518531-518550 | Rv0429c (def) / Rv0430 | −137/−181 |
| 0.92 | 1.00 | AGTGTAACGCATATCACGTG | 542072-542091 | Rv0451c (mmpS4) /Rv0452 | −164/−49 |
| 0.97 | 1.00 | TAGGTGACCAAACTCACGCT | 542901-542920 | Rv0453 (PPE11) | −252 |
| 0.46 | 1.00 | AGTGTGAGCTGTATTACATG | 549630-549649 | Rv0457c/Rv0458 | −25/−24 |
| 0.97 | 0.53 | ATTGTGAATCTGGCGACGCG | 747949-747968 | Rv0651 (rplJ) | −306 |
| 0.98 | 0.60 | GGCGTCGCGGGATTCACACT | 747981-748000 | Rv0651 (rplJ) | −274 |
| 0.78 | 1.00 | ATCGTGGGCTTGCTGACGCG | 754621-754640 | Rv0658c | −214 |
| 0.96 | 1.00 | GATGTCAGCTACTCCACAAC | 780543-780562 | Rv0680c/Rv0681 | −129/−157 |
| 0.97 | 1.00 | ATCGTGGAACGGCTGACAAC | 898731-898750 | Rv0805 | −79 |
| 0.95 | 1.00 | AGCGTGATTCTGGCGACGCC | 948516-948535 | Rv0851c/Rv0852 (fadD16) | −50/−22 |
| 0.93 | 0.86 | TATGTGGGTAATGTCACATG | 965958-965977 | Rv0867c (rpfA) | −425 |
| 1.00 | 1.00 | AGTGTGAACAAGCTCACATG | 982625-982644 | Rv0884c (serC)/Rv0885 | −73/−116 |
| 0.99 | 1.00 | ATTGTGAGTTGGATCACGTT | 1061787-1061806 | Rv0950c/Rv0951 (sucC) | −135/−156 |
| 0.97 | 1.00 | ACTGTGACTGGCGCGACACG | 1112239-1112258 | Rv0996 | −124 |
| 0.70 | 1.00 | CTCGTGACCTACGTGGCAGC | 1220408-1220427 | Rv1092c (coaA)/Rv1093 (glyA1) | −224/−145 |
| 1.00 | 1.00 | GATGTGACTCAAGTGACACG | 1284911-1284930 | Rv1158c/Rv1159 | −51/−60 |
| 0.98 | 1.00 | GCCGTGAGGGGCGTCACGGT | 1327660-1327679 | Rv1185c (fadD21) | −150 |
| 0.47 | 0.66 | TTCGTGAACTAGATCACCAT | 1374256-1374275 | Rv1230c | −61 |
| 0.97 | 0.85 | ATTGTGAATCTGGTGACGCG | 1404643-1404662 | Rv1256c (cyp-130) | −42 |
| 0.97 | 0.55 | CGCGTCGTGCGGTTCACACT | 1404675-1404694 | Rv1256c (cyp-130) | −74 |
| 0.90 | 1.00 | CGTGTGACCAAACTCACCGC | 1561327-1561346 | Rv1386 (PE15) | −116 |
| 0.96 | 1.00 | ATTGTGGCCCACGCCACGTC | 1582120-1582139 | Rv1405c/Rv1406 (fmt) | −153/−25 |
| 1.00 | 1.00 | AATGTGATCTAGGTCACGTG | 1757393-1757412 | Rv1552 (frdA) | −267 |
| 0.99 | 0.98 | GTTGTGATTTCAGTCACGCG | 1774835-1774854 | Rv1566c | −217 |
| 0.99 | 0.83 | GCCGTGACGCATGTGACGTT | 1784400-1784419 | Rv1581c | −101 |
| 0.99 | 0.68 | TGCGTCACATGCGTCACGTT | 1784468-1784487 | Rv1581c | −169 |
| 0.99 | 1.00 | ACCGTCACAGCTGTCACACG | 1992785-1992804 | Rv1759c (wag-22)/Rv1760 | −210/−347 |
| 0.91 | 1.00 | CTTGTGGTGTTGTTCACAAC | 2014548-2014567 | Rv1779c/Rv1780 | −71/−130 |
| 0.99 | 1.00 | GCCGTGAGATTCGTCACGTC | 2052776-2052795 | Rv1810 | −136 |
| 0.96 | 1.00 | AATGTCAGTGATCTGACGGC | 2219565-2219584 | Rv1976c/Rv1977 | −316/−168 |
| 0.99 | 1.00 | ATCGTCACGCACGTCACGGC | 2234038-2234057 | Rv1990c | −403 |
| 0.95 | 0.63 | ACCGTCACCTGCGTCACCGC | 2334300-2334319 | Rv2077c/Rv2078 | −8/−738 |
| 0.97 | 1.00 | GACGTCGCATCGGTCACAGC | 2386129-2386148 | Rv2124c (metH)/Rv2125 | −64/−143 |
| 0.97 | 1.00 | GCTGTCAAATCCGTCACGAA | 2610746-2610765 | Rv2336 | −70 |
| 0.85 | 1.00 | GTCGTGAATTGGGTGACCAA | 2620124-2620143 | Rv2342 | −127 |
| 0.91 | 1.00 | CGGGTCACTTCGATCACGCG | 2677687-2677706 | Rv2385 (mbtJ) | −21 |
| 0.98 | 1.00 | AGTGTGGCCAAGGTGACAGC | 2692237-2692256 | Rv2396 (PE_PGRS41) | −541 |
| 0.97 | 1.00 | GTGGTGAGCTGGTTCACACC | 2704451-2704470 | Rv2406c/Rv2407 | −16/−225 |
| 0.96 | 1.00 | GCGGTGATCGGCGTCACGCC | 2705800-2705819 | Rv2408 (PE24) | −196 |
| 1.00 | 1.00 | CGCGTGACATGTGTCACATG | 2921509-2921528 | Rv2591 (PE_PGRS44) | −21 |
| 0.97 | 1.00 | AGTGTGATTTACATCACATA | 3015060-3015079 | Rv2699c/Rv2700 | −98/−121 |
| 0.91 | 0.95 | AATGTGAGGTTCACGACGCG | 3412018-3412037 | Rv3050c | −64 |
| 0.99 | 1.00 | GGCGTCGCCAGATTCACGCT | 3427147-3427166 | Rv3063 (cstA) | −74 |
| 0.96 | 1.00 | GACGTCGGCCGCGTCACGTT | 3675815-3675834 | Rv3295 | −228 |
| 0.99 | 1.00 | AACGTCATCTTTGCCACGTT | 3874764-3874783 | Rv3454 | −35 |
| 0.99 | 1.00 | GATGTGATGCACTTGACATC | 4091145-4091164 | Rv3650 (PE33) | −66 |
| 0.99 | 1.00 | GTCGTGAACGGTTTGACGGT | 4092932-4092951 | Rv3652 (PE_PGRS60) | −678 |
| 0.92 | 1.00 | GCTGTGAACCCTGCGACGCA | 4169322-4169341 | Rv3724A (cut5a) | −262 |
| 0.99 | 1.00 | ACTGTGACCACGGCCACGCT | 4178090-4178109 | Rv3729 | −173 |
| 0.97 | 1.00 | GTTGTGACTTACCTCACCGT | 4317080-4317099 | Rv3843c/Rv3844 | −487/−1673 |
| 0.96 | 1.00 | TATGTGACGAAGCCCACATC | 4329934-4329953 | Rv3857c | −323 |
| 0.99 | 1.00 | CATGTCAAAACATTGACAAT | 4360091-4360110 | Rv3879c | −312 |
| 0.98 | 1.00 | GATGTGAAATCTGCGACGCC | 4376153-4376172 | Rv3893c (PE36) | −161 |
a
Probability that the site belongs in the alignment.
b
Frequency with which the site was sampled.
c
Gene(s) encoded downstream of the site; for sites found between divergently transcribed genes, the two genes are listed separated by a slash.
d
Distance upstream of the start codon of the gene listed in the previous column.