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 236 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | 1 | 1,817,213 | 0 | A | . | 79.1% | 91.4 / 32.4 | 43 | intergenic (+35313/+18171) | unknown/unknown | tRNA‑Asp‑GTC/tRNA‑Lys‑CTT |
| * | 1 | 11,382 | 0 | G | T | 76.7% | 311.2 / 109.7 | 176 | intergenic (+6775/+119123) | unknown/unknown | tRNA‑Val‑TAC/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| * | 1 | 98,588 | 0 | G | A | 74.6% | 262.8 / 98.3 | 190 | intergenic (+93981/+31917) | unknown/unknown | tRNA‑Val‑TAC/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| * | 1 | 279,161 | 0 | A | G | 67.9% | 53.3 / 32.9 | 56 | intergenic (‑65277/+522) | unknown/unknown | tRNA‑Ser‑GCT/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| * | 1 | 326,937 | 1 | . | T | 66.7% | 23.9 / 12.9 | 15 | intergenic (‑42308/‑36390) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 326,937 | 2 | . | A | 66.7% | 25.4 / 12.7 | 15 | intergenic (‑42308/‑36390) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 326,937 | 3 | . | A | 66.7% | 23.8 / 12.7 | 15 | intergenic (‑42308/‑36390) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 326,937 | 4 | . | T | 66.7% | 25.8 / 12.9 | 15 | intergenic (‑42308/‑36390) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 326,937 | 5 | . | T | 66.7% | 25.1 / 12.9 | 15 | intergenic (‑42308/‑36390) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 326,937 | 6 | . | A | 66.7% | 25.7 / 12.7 | 15 | intergenic (‑42308/‑36390) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 326,937 | 7 | . | G | 66.7% | 23.2 / 15.1 | 15 | intergenic (‑42308/‑36390) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 326,937 | 8 | . | C | 66.7% | 23.5 / 15.3 | 15 | intergenic (‑42308/‑36390) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 326,937 | 9 | . | A | 66.7% | 25.3 / 12.7 | 15 | intergenic (‑42308/‑36390) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 326,937 | 10 | . | G | 66.7% | 23.2 / 15.1 | 15 | intergenic (‑42308/‑36390) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 326,937 | 11 | . | A | 66.7% | 25.3 / 12.7 | 15 | intergenic (‑42308/‑36390) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| * | 1 | 1,817,235 | 0 | C | T | 61.3% | 7.4 / 23.9 | 31 | intergenic (+35335/+18149) | unknown/unknown | tRNA‑Asp‑GTC/tRNA‑Lys‑CTT |
| * | 1 | 870,115 | 0 | T | . | 60.5% | 16.3 / 146.5 | 86 | intergenic (‑12/+41) | unknown/unknown | tRNA‑Lys‑TTT/tRNA‑Leu‑TAA |
| * | 1 | 870,116 | 0 | C | . | 60.5% | 13.3 / 162.8 | 86 | intergenic (‑13/+40) | unknown/unknown | tRNA‑Lys‑TTT/tRNA‑Leu‑TAA |
| * | 1 | 1,452,303 | 0 | A | G | 58.8% | 33.6 / 100.3 | 116 | intergenic (‑34052/‑39232) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑Ser‑GGA |
| * | 1 | 1,287,522 | 0 | A | C | 57.4% | 21.9 / 58.9 | 54 | intergenic (+148392/+105789) | unknown/unknown | tRNA‑Met‑CAT/tRNA‑Val‑GAC |
| Marginal new junction evidence (lowest skew 10 of 70 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | 1 | = 326937 | 2 (0.020) | 15 (0.180) +TAATTAGCAGA |
16/400 | 3.1 | 88.7% | intergenic (‑42308/‑36390) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA |
| ? | 1 | 326938 = | 2 (0.020) | intergenic (‑42309/‑36389) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA | |||||
| * | ? | 1 | = 132241 | NA (NA) | 12 (0.150) | 9/396 | 4.7 | NA | noncoding (1287/3023 nt) | unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| ? | 1 | = 132346 | NA (NA) | noncoding (1182/3023 nt) | unknown | LSU rRNA ## 23S rRNA, large subunit ribosomal RNA | |||||
| * | ? | 1 | 1984459 = | 0 (0.000) | 11 (0.140) +26 bp |
8/378 | 4.8 | 20.9% | intergenic (‑84716/–) | unknown/– | tRNA‑Met‑CAT/– |
| ? | 1 | 1984615 = | 95 (1.080) | intergenic (‑84872/–) | unknown/– | tRNA‑Met‑CAT/– | |||||
| * | ? | 1 | = 462668 | 105 (1.190) | 27 (0.310) | 9/430 | 5.0 | 20.4% | intergenic (+99251/‑109351) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA |
| ? | 1 | 462973 = | NA (NA) | intergenic (+99556/‑109046) | unknown/unknown | tRNA‑SeC(p)‑TCA/SSU rRNA ## 16S rRNA, small subunit ribosomal RNA | |||||
| * | ? | 1 | = 1130883 | 0 (0.000) | 10 (0.110) +CGA |
7/424 | 5.6 | 100% | intergenic (+15393/‑8171) | unknown/unknown | tRNA‑Gln‑TTG/tRNA‑Met‑CAT |
| ? | 1 | 1131552 = | 0 (0.000) | intergenic (+16062/‑7502) | unknown/unknown | tRNA‑Gln‑TTG/tRNA‑Met‑CAT | |||||
| * | ? | 1 | 220431 = | 0 (0.000) | 23 (0.260) | 6/428 | 6.0 | 30.1% | intergenic (‑6547/+59252) | unknown/unknown | tRNA‑Ser‑GCT/LSU rRNA ## 23S rRNA, large subunit ribosomal RNA |
| ? | 1 | 297983 = | 107 (1.220) | intergenic (‑13354/‑65344) | unknown/unknown | SSU rRNA ## 16S rRNA, small subunit ribosomal RNA/tRNA‑SeC(p)‑TCA | |||||
| * | ? | 1 | 607374 = | 79 (0.890) | 6 (0.070) | 5/410 | 6.2 | 6.1% | intergenic (+19059/‑2645) | unknown/unknown | tRNA‑Arg‑TCT/tRNA‑Phe‑GAA |
| ? | 1 | 607717 = | 111 (1.320) | intergenic (+19402/‑2302) | unknown/unknown | tRNA‑Arg‑TCT/tRNA‑Phe‑GAA | |||||
| * | ? | 1 | 1064606 = | 101 (1.140) | 6 (0.070) | 5/412 | 6.3 | 5.7% | intergenic (‑139889/‑50502) | unknown/unknown | tRNA‑Gly‑GCC/tRNA‑Met‑CAT |
| ? | 1 | 1064993 = | 100 (1.180) | intergenic (‑140276/‑50115) | unknown/unknown | tRNA‑Gly‑GCC/tRNA‑Met‑CAT | |||||
| * | ? | 1 | = 740650 | 115 (1.300) | 5 (0.060) | 5/418 | 6.3 | 4.4% | intergenic (‑17936/‑46541) | unknown/unknown | tRNA‑Met‑CAT/tRNA‑Leu‑GAG |
| ? | 1 | = 740784 | 106 (1.240) | intergenic (‑18070/‑46407) | unknown/unknown | tRNA‑Met‑CAT/tRNA‑Leu‑GAG | |||||
| * | ? | 1 | = 1061944 | 89 (1.010) | 5 (0.060) | 5/422 | 6.4 | 5.3% | intergenic (‑137227/‑53164) | unknown/unknown | tRNA‑Gly‑GCC/tRNA‑Met‑CAT |
| ? | 1 | = 1062196 | 92 (1.060) | intergenic (‑137479/‑52912) | unknown/unknown | tRNA‑Gly‑GCC/tRNA‑Met‑CAT | |||||