| Label | Strand | Begin | End | Length (bp) | Coding Probability | Best similarity | Evalue | % identity | Sequence |
| Rv0157.1 | reverse | 186496 | 186621 | 126 | 0.567143 | O53976 HYPOTHETICAL 23.6 KDA PROTEIN. | 1e-07 | 62 | View |
| Rv0163.1 | direct | 193678 | 194106 | 429 | 0.821976 | O06090 HYPOTHETICAL 17.0 KDA PROTEIN. | 0 | 76 | View |
| Rv0281.1 | reverse | 341987 | 342355 | 369 | 0.570478 | No significant database matches | | | View |
| Rv0393.1 | direct | 472912 | 473100 | 189 | 0.700822 | O33266 HYPOTHETICAL 54.1 KDA PROTEIN. | 3e-16 | 68 | View |
| Rv0470c.1 | reverse | 561855 | 562292 | 438 | 0.420305 | No significant database matches | | | View |
| Rv0492c.1 | reverse | 583376 | 583702 | 327 | 0.667413 | No significant database matches | | | View |
| Rv0500.1 | direct | 591109 | 591342 | 234 | 0.547538 | Q49828 B2168_C1_172. | 2e-32 | 82 | View |
| Rv0521c.1 | direct | 612629 | 612898 | 270 | 0.485783 | Q9KJ21 SARCOSINE-DIMETHYLGLYCINE METHYLTRANSFERASE. | 1.4e-05 | 41 | View |
| Rv0521c.2 | direct | 613036 | 614337 | 1302 | 0.702174 | P42087 PUTATIVE HISTIDINE PERMEASE. | 0 | 35 | View |
| Rv0590.1 | direct | 688806 | 689057 | 252 | 0.619148 | O07414 HYPOTHETICAL 37.7 KDA PROTEIN. | 1e-19 | 52 | View |
| Rv0634c.1 | direct | 731710 | 731874 | 165 | 0.539244 | P96925 50S RIBOSOMAL PROTEIN L33 TYPE 2. | 2e-28 | 100 | View |
| Rv0724.1 | reverse | 817532 | 817783 | 252 | 0.806017 | P71987 HYPOTHETICAL 33.6 KDA PROTEIN. | 5e-18 | 56 | View |
| Rv0749.1 | reverse | 841738 | 841872 | 135 | 0.614038 | P71644 HYPOTHETICAL 42.8 KDA PROTEIN. | 0.0002 | 46 | View |
| Rv0755c.1 | reverse | 850343 | 850555 | 213 | 0.401285 | Q9RI80 PUTATIVE NONCOMPOSITE TRANSPOSON TRANSPOSASE. | 1e-05 | 50 | View |
| Rv0787.1 | direct | 882522 | 882758 | 237 | 0.584410 | O05755 HYPOTHETICAL 8.6 KDA PROTEIN MLCB5.24. | 2e-26 | 75 | View |
| Rv0946c.1 | reverse | 1056787 | 1056972 | 186 | 0.442236 | P17944 ANTIGEN 85-A PRECURSOR (85A) (32 KDA PROTEIN) (ANT | 4e-06 | 66 | View |
| Rv0999.1 | reverse | 1116532 | 1117146 | 615 | 0.503668 | CAB93740 Hypothetical 23.1 kDa protein. | 0 | 52 | View |
| Rv1116.1 | reverse | 1241116 | 1241388 | 273 | 0.404044 | P94981 HYPOTHETICAL 30.2 KDA PROTEIN. | 9e-20 | 68 | View |
| Rv1322.1 | reverse | 1485314 | 1485721 | 408 | 0.698850 | Q49717 B1549_F2_87. | 0 | 77 | View |
| Rv1383.1 | direct | 1557099 | 1560443 | 3345 | 0.944739 | P14846 CARBAMOYL-PHOSPHATE SYNTHASE LARGE CHAIN (EC 6.3.5 | 0 | 51 | View |
| Rv1394c.1 | direct | 1571045 | 1572076 | 1032 | 0.710763 | P71663 HYPOTHETICAL TRANSCRIPTIONAL REGULATOR RV1395. | 0 | 95 | View |
| Rv1473.1 | direct | 1662379 | 1662567 | 189 | 0.677317 | Q9RJ29 PUTATIVE TRANSCRIPTIONAL REGULATOR. | 1e-07 | 53 | View |
| Rv1489c.1 | direct | 1678940 | 1679167 | 228 | 0.532842 | P71774 PROBABLE METHYLMALONYL-COA MUTASE ALPHA-SUBUNIT (E | 8e-09 | 51 | View |
| Rv1498c.1 | reverse | 1690135 | 1690344 | 210 | 0.555520 | Q9RCZ5 HYPOTHETICAL 9.6 KDA PROTEIN. | 9e-23 | 65 | View |
| Rv1575.1 | direct | 1780445 | 1780648 | 204 | 0.525815 | O06616 HYPOTHETICAL 11.4 KDA PROTEIN. | 5e-15 | 75 | View |
| Rv1638.1 | reverse | 1846717 | 1846971 | 255 | 0.480306 | Q49845 B2235_C3_214. | 0.001 | 61 | View |
| Rv1706c.1 | reverse | 1934483 | 1934647 | 165 | 0.537018 | P71836 HYPOTHETICAL 56.6 KDA PROTEIN CY369.27C. | 0.001 | 64 | View |
| Rv1765c.1 | reverse | 1999143 | 1999355 | 213 | 0.423515 | Q54336 SIMILAR TO ORF2 OF THE IS3 FAMILY. | 3e-14 | 55 | View |
| Rv1791.1 | direct | 2030345 | 2030518 | 174 | 0.516579 | P96363 HYPOTHETICAL 11.0 KDA PROTEIN. | 5e-28 | 100 | View |
| Rv1931c.1 | reverse | 2182688 | 2182945 | 258 | 0.665116 | Q9RJG8 ARAC FAMILY TRANSCRIPTIONAL REGULATOR. | 5e-16 | 54 | View |
| Rv2024c.1 | direct | 2270682 | 2271071 | 390 | 0.508614 | No significant database matches | | | View |
| Rv2159c.1 | reverse | 2421644 | 2422276 | 633 | 0.417753 | CAB82866 Hypothetical 24.1 kDa protein. | 5e-05 | 40 | View |
| Rv2219.1 | reverse | 2486995 | 2487369 | 375 | 0.799695 | Q9S2N9 HYPOTHETICAL 16.6 KDA PROTEIN. | 2e-09 | 35 | View |
| Rv2250c.1 | direct | 2525370 | 2525816 | 447 | 0.596387 | Q9RJ97 PUTATIVE FLAVOPROTEIN. | 5e-11 | 38 | View |
| Rv2282c.1 | reverse | 2555926 | 2556249 | 324 | 0.548983 | No significant database matches | | | View |
| Rv2306c.1 | direct | 2577486 | 2577917 | 432 | 0.454381 | P96915 HYPOTHETICAL 25.2 KDA PROTEIN RV0625C. | 4e-28 | 78 | View |
| Rv2401.1 | reverse | 2698043 | 2698243 | 201 | 0.534257 | Q49760 HYPOTHETICAL 10.3 KDA PROTEIN B1937_F2_47. | 3e-12 | 50 | View |
| Rv2427c.1 | reverse | 2725596 | 2725859 | 264 | 0.453123 | P52677 PROBABLE HYDROGEN PEROXIDE-INDUCIBLE GENES ACTIVAT | 2e-12 | 72 | View |
| Rv2631.1 | direct | 2958361 | 2958864 | 504 | 0.606158 | O59245 HYPOTHETICAL 98.1 KDA PROTEIN PH1602. | 2.00386e-43 | 54 | View |
| Rv2702.1 | reverse | 3017738 | 3018121 | 384 | 0.419047 | No significant database matches | | | View |
| Rv2737c.1 | direct | 3051616 | 3051786 | 171 | 0.412746 | Q9X9U6 HYPOTHETICAL 18.7 KDA PROTEIN (FRAGMENT). | 2e-10 | 59 | View |
| Rv2802c.1 | direct | 3111819 | 3112283 | 465 | 0.561298 | O05910 HYPOTHETICAL 17.4 KDA PROTEIN. | 2e-06 | 42 | View |
| Rv2856.1 | direct | 3167865 | 3168194 | 330 | 0.718813 | O66901 HYDROGENASE EXPRESSION/FORMATION PROTEIN B. | 1e-14 | 44 | View |
| Rv2856.2 | direct | 3168209 | 3168421 | 213 | 0.617621 | Q43949 HYDROGENASE EXPRESSION/FORMATION PROTEIN HYPB. | 7e-15 | 52 | View |
| Rv3022c.1 | reverse | 3380679 | 3380963 | 285 | 0.615617 | O53690 PE-FAMILY PROTEIN. | 1e-11 | 59 | View |
| Rv3127.1 | reverse | 3493168 | 3493515 | 348 | 0.772580 | P71644 HYPOTHETICAL 42.8 KDA PROTEIN. | 1e-18 | 47 | View |
| Rv3127.2 | reverse | 3493600 | 3494190 | 591 | 0.699554 | P71644 HYPOTHETICAL 42.8 KDA PROTEIN. | 6e-40 | 46 | View |
| Rv3221c.1 | reverse | 3598185 | 3598352 | 168 | 0.417021 | Q9XCD7 HYPOTHETICAL 11.6 KDA PROTEIN. | 2e-10 | 81 | View |
| Rv3224.1 | direct | 3600631 | 3600816 | 186 | 0.415516 | Q9XCD9 HYPOTHETICAL 19.1 KDA PROTEIN. | 0.001 | 62 | View |
| Rv3395c.1 | direct | 3811715 | 3812338 | 624 | 0.448316 | No significant database matches | | | View |
| Rv3565.1 | reverse | 4007330 | 4007686 | 357 | 0.643541 | O86309 ARYLAMINE N-ACETYLTRANSFERASE (EC 2.3.1.5). | 3e-31 | 59 | View |
| Rv3678c.1 | reverse | 4118530 | 4118688 | 159 | 0.452513 | Q9XA37 HYPOTHETICAL 6.1 KDA PROTEIN. | 6e-16 | 78 | View |
| Rv3770c.1 | reverse | 4215881 | 4216060 | 180 | 0.493107 | P71639 HYPOTHETICAL 52.4 KDA PROTEIN. | 3e-11 | 80 | View |
| Rv3770c.2 | reverse | 4216078 | 4216266 | 189 | 0.419803 | P71639 HYPOTHETICAL 52.4 KDA PROTEIN. | 6e-27 | 93 | View |