mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 294 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | 1 | 1,984,942 | 0 | A | . | 79.1% | 90.6 / 32.7 | 43 | intergenic (+35314/+17640) | unknown/unknown | tRNA‑Asp‑GTC/tRNA‑Lys‑CTT |
| * | 1 | 1,774,878 | 0 | T | . | 77.2% | 165.8 / 70.9 | 79 | intergenic (+41033/‑35102) | unknown/unknown | tRNA‑Asn‑GTT/tRNA‑Leu‑CAA |
| * | 1 | 1,774,879 | 0 | T | . | 77.2% | 166.0 / 70.6 | 79 | intergenic (+41034/‑35101) | unknown/unknown | tRNA‑Asn‑GTT/tRNA‑Leu‑CAA |
| * | 1 | 90,754 | 0 | G | T | 76.8% | 385.2 / 130.1 | 185 | intergenic (–/‑7338) | –/unknown | –/tRNA‑Pseudo‑??? |
| * | 1 | 171,611 | 0 | G | T | 76.7% | 310.9 / 103.9 | 176 | intergenic (+6775/+119132) | unknown/unknown | tRNA‑Val‑TAC/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| * | 1 | 1,539,051 | 0 | A | G | 70.5% | 113.9 / 14.4 | 63 | intergenic (+232262/+21960) | unknown/unknown | tRNA‑Met‑CAT/tRNA‑Val‑GAC |
| * | 1 | 1,586,142 | 0 | T | C | 67.7% | 28.3 / 18.6 | 34 | intergenic (‑191/‑73093) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑Ser‑GGA |
| * | 1 | 486,482 | 1 | . | T | 66.7% | 23.2 / 12.8 | 15 | intergenic (‑41420/‑36402) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 486,482 | 2 | . | A | 66.7% | 24.6 / 12.6 | 15 | intergenic (‑41420/‑36402) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 486,482 | 3 | . | A | 66.7% | 23.0 / 12.6 | 15 | intergenic (‑41420/‑36402) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 486,482 | 4 | . | T | 66.7% | 25.0 / 12.8 | 15 | intergenic (‑41420/‑36402) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 486,482 | 5 | . | T | 66.7% | 24.4 / 12.8 | 15 | intergenic (‑41420/‑36402) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 486,482 | 6 | . | A | 66.7% | 24.9 / 12.6 | 15 | intergenic (‑41420/‑36402) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 486,482 | 7 | . | G | 66.7% | 23.5 / 14.6 | 15 | intergenic (‑41420/‑36402) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 486,482 | 8 | . | C | 66.7% | 23.7 / 14.8 | 15 | intergenic (‑41420/‑36402) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 486,482 | 9 | . | A | 66.7% | 24.5 / 12.6 | 15 | intergenic (‑41420/‑36402) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 486,482 | 10 | . | G | 66.7% | 23.5 / 14.6 | 15 | intergenic (‑41420/‑36402) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 486,482 | 11 | . | A | 66.7% | 24.5 / 12.6 | 15 | intergenic (‑41420/‑36402) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 524,745 | 0 | C | T | 64.7% | 126.3 / 139.4 | 184 | intergenic (+1771/‑206822) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| * | 1 | 524,795 | 0 | T | C | 63.5% | 120.1 / 114.6 | 156 | intergenic (+1821/‑206772) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 68 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | 1 | = 486482 | 2 (0.020) | 15 (0.180) +TAATTAGCAGA |
16/400 | 3.1 | 88.7% | intergenic (‑41420/‑36402) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| ? | 1 | 486483 = | 2 (0.020) | intergenic (‑41421/‑36401) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA | |||||
| * | ? | 1 | = 292479 | NA (NA) | 12 (0.150) | 9/396 | 4.7 | NA | noncoding (1287/3023 nt) | unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| ? | 1 | = 292584 | NA (NA) | noncoding (1182/3023 nt) | unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA | |||||
| * | ? | 1 | = 1298542 | 0 (0.000) | 10 (0.110) +CGA |
7/424 | 5.6 | 100% | intergenic (+15393/‑8171) | unknown/unknown | tRNA‑Gln‑TTG/tRNA‑Met‑CAT |
| ? | 1 | 1299211 = | 0 (0.000) | intergenic (+16062/‑7502) | unknown/unknown | tRNA‑Gln‑TTG/tRNA‑Met‑CAT | |||||
| * | ? | 1 | = 171699 | 132 (1.500) | 10 (0.130) +21 bp |
6/388 | 5.6 | 10.0% | intergenic (+6863/+119044) | unknown/unknown | tRNA‑Val‑TAC/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| ? | 1 | = 524855 | 68 (0.770) | intergenic (+1881/‑206712) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA | |||||
| * | ? | 1 | 1232244 = | 101 (1.140) | 6 (0.070) | 5/412 | 6.2 | 5.7% | intergenic (‑139931/‑50523) | unknown/unknown | tRNA‑Gly‑GCC/tRNA‑Met‑CAT |
| ? | 1 | 1232631 = | 100 (1.180) | intergenic (‑140318/‑50136) | unknown/unknown | tRNA‑Gly‑GCC/tRNA‑Met‑CAT | |||||
| * | ? | 1 | 766931 = | 79 (0.900) | 6 (0.070) | 5/410 | 6.2 | 6.1% | intergenic (+19059/‑2645) | unknown/unknown | tRNA‑Arg‑TCT/tRNA‑Phe‑GAA |
| ? | 1 | 767274 = | 111 (1.320) | intergenic (+19402/‑2302) | unknown/unknown | tRNA‑Arg‑TCT/tRNA‑Phe‑GAA | |||||
| * | ? | 1 | 1278403 = | 87 (0.990) | 7 (0.080) | 5/418 | 6.3 | 6.8% | intergenic (‑186090/‑4364) | unknown/unknown | tRNA‑Gly‑GCC/tRNA‑Met‑CAT |
| ? | 1 | 1278805 = | 107 (1.250) | intergenic (‑186492/‑3962) | unknown/unknown | tRNA‑Gly‑GCC/tRNA‑Met‑CAT | |||||
| * | ? | 1 | = 1229582 | 89 (1.010) | 5 (0.060) | 5/422 | 6.3 | 5.3% | intergenic (‑137269/‑53185) | unknown/unknown | tRNA‑Gly‑GCC/tRNA‑Met‑CAT |
| ? | 1 | = 1229834 | 92 (1.060) | intergenic (‑137521/‑52933) | unknown/unknown | tRNA‑Gly‑GCC/tRNA‑Met‑CAT | |||||
| * | ? | 1 | = 908243 | 115 (1.300) | 5 (0.060) | 5/418 | 6.3 | 4.4% | intergenic (‑25972/‑46541) | unknown/unknown | tRNA‑Met‑CAT/tRNA‑Leu‑GAG |
| ? | 1 | = 908377 | 106 (1.240) | intergenic (‑26106/‑46407) | unknown/unknown | tRNA‑Met‑CAT/tRNA‑Leu‑GAG | |||||
| * | ? | 1 | = 1334559 | 76 (0.860) | 4 (0.050) | 4/386 | 6.4 | 5.3% | intergenic (+27770/+226452) | unknown/unknown | tRNA‑Met‑CAT/tRNA‑Val‑GAC |
| ? | 1 | = 1334609 | 74 (0.930) | intergenic (+27820/+226402) | unknown/unknown | tRNA‑Met‑CAT/tRNA‑Val‑GAC | |||||