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 |
|
A4 F8 I1 R1
|
11 |
33.4 |
1306760 |
96.6% |
1262330 |
122.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
757,731 |
Δ1 bp |
coding (43/717 nt) |
sdhB → |
succinate dehydrogenase, FeS subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 757,731 | 0 | G | . | 100.0%
| 67.5
/ NA
| 16 | coding (43/717 nt) | sdhB | succinate dehydrogenase, FeS subunit |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (7/9); total (7/9) |
CCAGAGTCGGAATCCATGACGCGCCGAAGCGTCAACATGGAACCGAAACTGCGCCCGGCATTCCCGCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTTGATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGC > NC_000913/757587‑757832
|
ccAGAGTCGGAATCCATGACGCGCCGAAGCGTCAACATGGAACCGAAACTGCGCCCGGCATTCCCGCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTt‑atgat > 2:122319/1‑149 (MQ=255)
aGCGTCAACATGGAACCGAAACTGCGCCCGGCATTCCCGCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTg < 1:127105/149‑1 (MQ=255)
ccGAAACTGCGCCCGGCATTCCCGCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATg < 1:103517/144‑1 (MQ=255)
ccGAAACTGCGCCCGGCATTCCCGCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATg > 2:103517/1‑144 (MQ=255)
aaaCTGCGCCCGGCATTCCCGCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTcgc < 1:122319/149‑1 (MQ=255)
gccgAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATgc > 2:178878/1‑149 (MQ=255)
ccgAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATgcg > 7:40223/1‑149 (MQ=255)
tacttactAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATgcgc > 1:67242/1‑139 (MQ=255)
tacttactAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATgcgc < 2:67242/139‑1 (MQ=255)
actAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTaaaa < 8:40223/148‑1 (MQ=255)
tAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATgcgc > 2:188151/1‑132 (MQ=255)
tAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATgcgc < 1:188151/132‑1 (MQ=255)
aaaaTGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCa < 5:65032/124‑1 (MQ=255)
aaaaTGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCa > 6:65032/1‑124 (MQ=255)
tCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGc > 7:17481/1‑136 (MQ=255)
tCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGc < 8:17481/136‑1 (MQ=255)
gATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCtt < 8:108185/80‑1 (MQ=255)
|
CCAGAGTCGGAATCCATGACGCGCCGAAGCGTCAACATGGAACCGAAACTGCGCCCGGCATTCCCGCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTTGATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGC > NC_000913/757587‑757832
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ 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
AAGCGTCAACATGGAACCGAAACTGCGCCCGGCATTCCCGCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTTGATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCC > NC_000913/757613‑757874
|
AAGCGTCAACATGGAACCGAAACTGCGCCCGGCATTCCCGCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGG < NB501016:228:HFK2FAFXY:1:21112:8300:18201/151‑1 (MQ=60)
ACCGAAACTGCGCCCGGCATTCCCGCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGA < NB501016:228:HFK2FAFXY:1:21103:17560:18485/146‑1 (MQ=60)
GAAACTGCGCCCGGCATTCCCGCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCG < NB501016:228:HFK2FAFXY:1:21110:13384:20159/151‑1 (MQ=60)
CCGCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACAC < NB501016:228:HFK2FAFXY:4:11407:15918:17149/109‑1 (MQ=60)
GCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGC > NB501016:228:HFK2FAFXY:4:11508:6565:1427/1‑151 (MQ=60)
GTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCT > NB501016:228:HFK2FAFXY:1:11302:19781:5396/1‑141 (MQ=60)
CTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCT < NB501016:228:HFK2FAFXY:1:21312:13076:8282/134‑1 (MQ=60)
GAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAG < NB501016:228:HFK2FAFXY:3:11603:11194:15299/126‑1 (MQ=60)
CTCGAGTTTTCAATTTATCGCTATAACCCGGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCC > NB501016:228:HFK2FAFXY:4:11409:23002:2730/1‑138 (MQ=60)
GGATGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTAagatcggaagagcacacgtctgaacccagtcaccgctcattatctcgtatgccgtcttctgcttgaaa > NB501016:228:HFK2FAFXY:4:21505:4220:15823/1‑82 (MQ=60)
TGTT‑ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCC > NB501016:228:HFK2FAFXY:4:11608:3370:13681/1‑118 (MQ=60)
|
AAGCGTCAACATGGAACCGAAACTGCGCCCGGCATTCCCGCCGAAGATTCGTACTTACTAATGCGGAGACAGGAAAATGAGACTCGAGTTTTCAATTTATCGCTATAACCCGGATGTTGATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCC > NC_000913/757613‑757874
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
