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 I184 R1
|
278 |
29.6 |
1166432 |
97.3% |
1134938 |
124.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
635,449 |
T→C |
S81P (TCC→CCC) |
ahpF → |
alkyl hydroperoxide reductase subunit F |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 635,449 | 0 | T | C | 100.0%
| 84.1
/ NA
| 26 | S81P (TCC→CCC) | ahpF | alkyl hydroperoxide reductase subunit F |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (9/17); total (9/17) |
AAGGAACTGTTGGCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGATTTTGAATTCGA > NZ_CP009273/635317‑635573
|
aaGGAACTGTTGGCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGc < 2:494635/139‑1 (MQ=255)
gCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGc < 1:279733/139‑1 (MQ=255)
cTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTAc < 2:331131/139‑1 (MQ=255)
aGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCg < 2:350135/139‑1 (MQ=255)
aGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCg < 1:262948/139‑1 (MQ=255)
aGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCg < 1:454676/139‑1 (MQ=255)
aGACAAAGTCACCTTTAAAGAAGATAACAGCGTGCCGGTGCGGAAGCCGTCTTTCCTCAGCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTCGGCCACGAGTTCACCTCGCTGGTACTGGCg < 2:574201/139‑1 (MQ=255)
gACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGt < 1:44698/139‑1 (MQ=255)
tAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCggt > 2:58554/1‑139 (MQ=255)
agaTAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCAt < 2:32775/139‑1 (MQ=255)
cTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGa > 2:576151/1‑137 (MQ=255)
tGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGTCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTTCTGTCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCa < 2:361265/139‑1 (MQ=255)
cGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAgcg < 2:481174/135‑1 (MQ=255)
cGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAgcg > 1:481174/1‑135 (MQ=255)
gTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGtc < 1:510685/139‑1 (MQ=255)
gTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGCCTctgctg > 2:512735/1‑139 (MQ=255)
accACCAACCCAGGTTCCAACCAGGGGCCACGTTGTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGGGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGagt < 2:304837/136‑3 (MQ=255)
aTCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGAt < 2:546724/137‑1 (MQ=255)
gTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCCGACTCTGCTGGAGCAGCTTCGCCATATTGACgg > 2:109323/1‑139 (MQ=255)
tCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCtgtg > 1:159859/1‑74 (MQ=255)
tCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCtgtg < 2:159859/74‑1 (MQ=255)
aaCCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGAtt > 1:190923/1‑139 (MQ=255)
aaCCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGCCATCCGTAGAAAGAAGCGCAGTCTCTGCTGGAGCAGCTTCGCCATATTGACGGTGAtt > 2:247462/1‑139 (MQ=255)
aCCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTg > 2:503491/1‑65 (MQ=255)
aCCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTg < 1:503491/65‑1 (MQ=255)
cACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGATTTTGAATTCGa < 1:576151/139‑1 (MQ=255)
|
AAGGAACTGTTGGCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGATTTTGAATTCGA > NZ_CP009273/635317‑635573
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AGAAATCAAGGAACTGTTGGCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGATTTTGAATTCGAAACCTATTACTCGCTCTCTTGCCA > NZ_CP009273/635310‑635597
|
AGAAATCAAGGAACTGTTGGCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGC < SRR3722139.251022/151‑1 (MQ=60)
CGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCG < SRR3722139.283256/151‑1 (MQ=60)
CAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGAC < SRR3722139.266248/151‑1 (MQ=60)
CAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGAC < SRR3722139.460000/151‑1 (MQ=60)
AGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACC < SRR3722139.45218/151‑1 (MQ=60)
agcagaagacggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacagCCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGG < SRR3722139.509301/87‑1 (MQ=60)
GCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTC > SRR3722139.486781/1‑151 (MQ=60)
GCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCtgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccgtcttctgcttgaaaaaaaaaaa > SRR3722139.477422/1‑74 (MQ=60)
CGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGC < SRR3722139.516566/151‑1 (MQ=60)
CCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCctgtctcttatacacatctcctagcccacgagaccgtagtagattccggatgccg > SRR3722139.161819/1‑96 (MQ=60)
ACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGATTT > SRR3722139.193288/1‑151 (MQ=60)
CCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGATTTTGAATTCGAAACCTATTACT < SRR3722139.582726/151‑1 (MQ=60)
CGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTTGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGATTTTGAATTCGAAACCTATTACTCGC > SRR3722139.159038/1‑151 (MQ=60)
GCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGATTTTGAATTCGAAACCTATTACTCGCTCTCTTGCCA < SRR3722139.154850/151‑1 (MQ=60)
|
AGAAATCAAGGAACTGTTGGCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCCATATTGACGGTGATTTTGAATTCGAAACCTATTACTCGCTCTCTTGCCA > NZ_CP009273/635310‑635597
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
