Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A3 F15 I1 R1
|
10 |
34.7 |
1290222 |
96.6% |
1246354 |
128.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
757,917 |
Δ1 bp |
coding (229/717 nt) |
sdhB → |
succinate dehydrogenase, FeS subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 757,917 | 0 | A | . | 100.0%
| 123.3
/ NA
| 28 | coding (229/717 nt) | sdhB | succinate dehydrogenase, FeS subunit |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (13/15); total (13/15) |
GTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATTACCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATGCGCAATATGAGAAAATTAAGCCTTACCTGTTG > NC_000913/757777‑758054
|
gTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGAttt > 1:90429/1‑149 (MQ=255)
gACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCa > 1:22495/1‑149 (MQ=255)
ttttagctgGATAAGCGCATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAAc > 3:120721/6‑149 (MQ=255)
tgctgGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGc > 7:61089/1‑149 (MQ=255)
ctgGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCg < 2:22495/149‑1 (MQ=255)
ttATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCaag > 5:72875/1‑145 (MQ=255)
aTCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAagaaga < 2:90429/147‑1 (MQ=255)
aGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGa < 3:142693/149‑1 (MQ=255)
aaaaGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCg > 8:35357/1‑149 (MQ=255)
gCCTGTCGGTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGACTGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCCGCCGGGCAAGAAGATTGGGATTCGCCCGCTGCCAGGTTTAc < 2:107303/149‑1 (MQ=255)
gTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTc < 2:145459/92‑1 (MQ=255)
ttCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGcc > 1:16721/1‑133 (MQ=255)
ttCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGcc < 2:16721/133‑1 (MQ=255)
cTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTtggt < 4:120721/149‑1 (MQ=255)
ccGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTtggtg < 5:58413/147‑1 (MQ=255)
tgCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATgg > 3:88790/1‑144 (MQ=255)
tgCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATgg < 4:88790/144‑1 (MQ=255)
gCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCgg < 1:169360/116‑1 (MQ=255)
gCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCgg > 2:169360/1‑116 (MQ=255)
cGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGa < 2:18288/119‑1 (MQ=255)
cGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGa > 1:18288/1‑119 (MQ=255)
aCGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATgcgc < 8:61089/149‑1 (MQ=255)
aTGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATGCGCAATATGAGaa > 7:56287/1‑148 (MQ=255)
gCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATgc < 5:12576/115‑1 (MQ=255)
gCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATgc > 6:12576/1‑115 (MQ=255)
gCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATGCGCAATATGAGAAAATTAAGCCTTACCTGTTg < 7:35357/146‑1 (MQ=255)
ccTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATGCGCaa > 5:89166/1‑118 (MQ=255)
ccTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATGCGCaa < 6:89166/118‑1 (MQ=255)
|
GTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATTACCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATGCGCAATATGAGAAAATTAAGCCTTACCTGTTG > NC_000913/757777‑758054
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATTACCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATGCGCAATATGAGAAAATTAAGCCTTACCTGTTGA > NC_000913/757776‑758055
|
GGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTC > NB501016:228:HFK2FAFXY:1:11311:20625:6219/1‑151 (MQ=60)
CGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCAC > NB501016:228:HFK2FAFXY:1:11109:1624:5963/1‑151 (MQ=60)
cttttagctggataagcgcATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACC > NB501016:228:HFK2FAFXY:2:21301:25036:6856/20‑151 (MQ=60)
CTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCC > NB501016:228:HFK2FAFXY:4:11607:17397:3485/1‑151 (MQ=60)
CTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGA > NB501016:228:HFK2FAFXY:3:11607:20310:7175/1‑147 (MQ=60)
CAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGAT < NB501016:228:HFK2FAFXY:2:21311:8966:10981/151‑1 (MQ=60)
TGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGagatcggaagagcacaacgtctgaactccagtcactccggagaatctcgtatggcgg > NB501016:228:HFK2FAFXY:1:21208:2226:10857/1‑94 (MQ=60)
GTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCA > NB501016:228:HFK2FAFXY:1:11107:9115:3533/1‑135 (MQ=60)
GCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGG < NB501016:228:HFK2FAFXY:3:11601:22302:10552/149‑1 (MQ=60)
GTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGG > NB501016:228:HFK2FAFXY:2:21108:21230:13081/1‑146 (MQ=60)
TGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGT < NB501016:228:HFK2FAFXY:1:21305:6422:17313/118‑1 (MQ=60)
CCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGAT > NB501016:228:HFK2FAFXY:1:11107:20654:14865/1‑121 (MQ=60)
CATGAACGGCAAGAATGGTCTGGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCACGTTTACCGGTGATCCGAGATTTGGTGGTAGACATGGGACAATTCTATGCGCAATATGAGAAA > NB501016:228:HFK2FAFXY:4:11604:10445:12993/1‑150 (MQ=60)
GGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATGCGCAATATGAGAAAATTAAGCCTTACCTGTTGA < NB501016:228:HFK2FAFXY:4:11505:13041:17257/148‑1 (MQ=60)
GGCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATGCG < NB501016:228:HFK2FAFXY:3:11406:15055:7844/117‑1 (MQ=60)
GCCTGTATT‑CCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATGCGCAAT > NB501016:228:HFK2FAFXY:3:21402:24060:2827/1‑120 (MQ=60)
|
GGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATTACCCCGATTTCGGCACTCAACCAGCCGGGCAAGAAGATTGTGATTCGCCCGCTGCCAGGTTTACCGGTGATCCGCGATTTGGTGGTAGACATGGGACAATTCTATGCGCAATATGAGAAAATTAAGCCTTACCTGTTGA > NC_000913/757776‑758055
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
