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 |
|
A2 F5 I179 R1
|
182 |
40.3 |
1547118 |
96.8% |
1497610 |
120.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
446,387 |
T→C |
D227G (GAT→GGT) |
cyoA ← |
cytochrome o ubiquinol oxidase subunit II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 446,387 | 0 | T | C | 100.0%
| 87.2
/ NA
| 25 | D227G (GAT→GGT) | cyoA | cytochrome o ubiquinol oxidase subunit II |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (10/15); total (10/15) |
GTTTCACGTTGGAGAAATATTCCACCTGGTTGTATTCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGATCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATACCGGCCATGG > NZ_CP009273/446256‑446513
|
gTTTCACGTTGGAGAAATATTCCACCTGGTTGTATTCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGgtg < 2:325207/138‑1 (MQ=255)
gTTTCACGTTGGAGAAATATTCCACCTGGTTGTATGCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCAGGTCAGACATGGTGTTCGGCGACTGATTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCgg < 1:300102/136‑1 (MQ=255)
cGTTGGAGAAATATTCCACCTGGTTGTATTCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCaa > 1:176400/1‑138 (MQ=255)
ggAGAAATATTCCACCTGGTTGTATTCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCt > 2:416312/1‑139 (MQ=255)
ggTTGTATTCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCt > 1:729324/1‑137 (MQ=255)
gTTGTATTCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTgag < 2:453449/139‑1 (MQ=255)
gCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCggg < 2:176400/139‑1 (MQ=255)
ggCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCg < 1:338735/138‑1 (MQ=255)
gcgcGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATg < 2:375897/119‑1 (MQ=255)
gcgcGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATg > 1:375897/1‑119 (MQ=255)
aGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTgg < 1:47767/139‑1 (MQ=255)
tCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCg > 2:757418/1‑135 (MQ=255)
cGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGgaga < 1:706035/138‑1 (MQ=255)
gTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGAt < 1:361182/126‑1 (MQ=255)
gTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGAt > 2:361182/1‑126 (MQ=255)
gtgtTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGt < 1:416312/139‑1 (MQ=255)
gtgtTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGt > 1:325376/1‑139 (MQ=255)
cGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATc < 2:737017/139‑1 (MQ=255)
cTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGAt > 1:696550/1‑135 (MQ=255)
gCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAgg < 2:566181/138‑1 (MQ=255)
cTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCg < 1:398621/139‑1 (MQ=255)
tCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATACCGGCCa < 1:346607/139‑1 (MQ=255)
aTGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATACCGGCCATgg > 1:125538/1‑138 (MQ=255)
cggcgCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATACCGGCCa > 2:199904/1‑132 (MQ=255)
cggcgCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATACCGGCCa < 1:199904/132‑1 (MQ=255)
|
GTTTCACGTTGGAGAAATATTCCACCTGGTTGTATTCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGATCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATACCGGCCATGG > NZ_CP009273/446256‑446513
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CATCGGCAAACAAGTCTGGTTTCACGTTGGAGAAATATTCCACCTGGTTGTATTCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGATCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATACCGGCCATGGCATAAATCTGGCTACCCAGACGC > NZ_CP009273/446238‑446536
|
CATCGGCAAACAAGTCTGGTTTCACGTTGGAGAAATATTCCACCTGGTTGTATTCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACC < SRR3722133.138741/151‑1 (MQ=60)
GTCTGGTTTCACGTTGGAGAAATATTCCACCTGGTTGTATTCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAAT > SRR3722133.178715/1‑150 (MQ=60)
GGTTTCACGTTGGAGAAATATTCCACCTGGTTGTATGCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCAGGTCAGACATGGTGTTCGGCGACTGATTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAG < SRR3722133.304175/148‑1 (MQ=60)
ATATTCCACCTGGTTGTATTCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTG > SRR3722133.738764/1‑149 (MQ=60)
GTATTCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCtgtctctt > SRR3722133.381152/1‑142 (MQ=60)
AGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGC < SRR3722133.343496/150‑1 (MQ=60)
CAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCG < SRR3722133.48369/151‑1 (MQ=60)
caGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAG < SRR3722133.366253/149‑1 (MQ=60)
TCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAA < SRR3722133.715149/150‑1 (MQ=60)
TGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTT > SRR3722133.329884/1‑151 (MQ=60)
GGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGA < SRR3722133.422061/151‑1 (MQ=60)
GTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATC > SRR3722133.705577/1‑147 (MQ=60)
GCTTTTGCGACCCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATAC < SRR3722133.404161/151‑1 (MQ=60)
CCACTGGTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATACCGGCCATGGC > SRR3722133.127193/1‑150 (MQ=60)
GTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATACCGGCCATGGCATAAATC < SRR3722133.202566/151‑1 (MQ=60)
GTCGAATGCGGCGCGACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATACCGGCCATGGCATAAATC < SRR3722133.351474/151‑1 (MQ=60)
ACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATACCGGCCATGGCATAAATCTGGCTctgtctctt > SRR3722133.565590/1‑141 (MQ=60)
ACCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATACCGGCCATGGCATAAATCTGGCTACCCAGACGC < SRR3722133.343919/151‑1 (MQ=60)
|
CATCGGCAAACAAGTCTGGTTTCACGTTGGAGAAATATTCCACCTGGTTGTATTCGCTAGGCGCGGCCAGTTTTTCGAACGCAGCCATGTCAGACATGGTGTTCGGCGACTGCTTCGCTTTTGCGACCCACTGGTCGAATGCGGCGCGATCCGGTGTTGCAATAGCTTTGAACTTCATGCCTGAGAAGCCCGGGCCGCTGTAGCTGGCGGAGATACCGTCATAAGTGCCGGGTTCGTTGGCGATCAGATGCAGGCGAGTCTGCATACCGGCCATGGCATAAATCTGGCTACCCAGACGC > NZ_CP009273/446238‑446536
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
