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 |
|
A1 F2 I207 R1
|
218 |
45.0 |
2482936 |
97.1% |
2410930 |
86.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,358,446 |
Δ1 bp |
coding (414/426 nt) |
nudI → |
nucleoside triphosphatase NudI |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,358,444 | 0 | A | . | 100.0%
| 127.8
/ NA
| 30 | coding (412/426 nt) | nudI | nucleoside triphosphatase NudI |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (17/13); total (17/13) |
ACGAAGAGTTTCAGGACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTGAAAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGAATTCCCCAT > NZ_CP009273/2358355‑2358519
|
aCGAAGAGTTTCAGGACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTGa > 1:27477/1‑90 (MQ=255)
aCGAAGAGTTTCAGGACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTGa < 2:1005345/90‑1 (MQ=255)
aaGAGTTTCAGGACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTGaagg < 1:12659/90‑3 (MQ=255)
aaGAGTTTCAGGACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTGaagg < 2:345356/90‑3 (MQ=255)
agTTTCAGGACTACGCGTGGGTAAAACCTGAATATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGtct < 2:462871/90‑1 (MQ=255)
aGGACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTa < 2:403625/90‑1 (MQ=255)
tACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAat > 2:419995/1‑90 (MQ=255)
aCGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAatg > 1:135172/1‑90 (MQ=255)
gTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAAtgatga < 1:1198456/90‑1 (MQ=255)
tGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGAc < 2:944730/90‑1 (MQ=255)
tGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGAc > 2:923279/1‑90 (MQ=255)
gggTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGtct > 2:647210/1‑72 (MQ=255)
gggTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGtct < 1:647210/72‑1 (MQ=255)
gggTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCACCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACa > 1:250999/1‑90 (MQ=255)
tCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTc > 1:134090/1‑90 (MQ=255)
tGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTGaagg > 1:83555/1‑49 (MQ=255)
tGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTGaagg < 2:83555/51‑3 (MQ=255)
tGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAg > 1:72321/1‑90 (MQ=255)
ggTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGa > 2:227704/1‑90 (MQ=255)
aTTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGAtt > 2:409466/1‑87 (MQ=255)
aTTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGAtt < 1:409466/87‑1 (MQ=255)
aTTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGaa > 2:78474/1‑90 (MQ=255)
aTTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGaa > 1:899645/1‑90 (MQ=255)
aTGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAAt > 1:894176/1‑90 (MQ=255)
gacttGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAAttt > 2:1024972/4‑90 (MQ=255)
gATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAAttt > 2:808543/1‑90 (MQ=255)
aTTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTa < 1:1024972/90‑1 (MQ=255)
ttGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGt > 1:716573/1‑90 (MQ=255)
tGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTa < 1:160062/90‑1 (MQ=255)
gTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTaa > 2:1012871/1‑90 (MQ=255)
tCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAAc > 1:618021/1‑90 (MQ=255)
gccgccCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGa < 1:750493/90‑1 (MQ=255)
ccACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGaa < 2:135172/90‑1 (MQ=255)
aaaaCGTTACTTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGAATTCCCCAt < 1:692092/90‑1 (MQ=255)
aaaaCGTTACTTTTG‑AAGATCTTCTGTACCAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGAATTCCCCAt < 1:914355/90‑1 (MQ=255)
aaaaCGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGAATTCCCCAt < 1:712307/90‑1 (MQ=255)
|
ACGAAGAGTTTCAGGACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTGAAAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGAATTCCCCAT > NZ_CP009273/2358355‑2358519
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AAAATAAACGAAGAGTTTCAGGACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTGAAAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGAATTCCCCATCCAGATAAACTTT > NZ_CP009273/2358348‑2358532
|
tcagatgtgtataagagaCAGGACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTGAAGG < SRR3722089.424257/82‑1 (MQ=60)
AAGAGTTTCAGGACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAA < SRR3722089.12811/100‑1 (MQ=60)
agagaCAGGACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAA < SRR3722089.655509/95‑1 (MQ=60)
TTTCAGGACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATG > SRR3722089.136813/1‑100 (MQ=60)
GACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCACCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACA > SRR3722089.254208/1‑100 (MQ=60)
GTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTAC < SRR3722089.1216679/100‑1 (MQ=60)
AACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTC > SRR3722089.135716/1‑100 (MQ=60)
CCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACtgtctcttatacacatctgacgctgccg > SRR3722089.84574/1‑72 (MQ=60)
CCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAG > SRR3722089.73199/1‑100 (MQ=60)
GATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAA > SRR3722089.912696/1‑100 (MQ=60)
CTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAAT > SRR3722089.907110/1‑100 (MQ=60)
TGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAG < SRR3722089.414424/100‑1 (MQ=60)
GCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGT > SRR3722089.725888/1‑100 (MQ=60)
GATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAAC > SRR3722089.625776/1‑100 (MQ=60)
ATTTGAATGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACG < SRR3722089.1040262/100‑1 (MQ=60)
TGTCGCCACCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGAATTCCC < SRR3722089.162054/100‑1 (MQ=60)
GCCGCCCGAAAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGAATTCCCCATC < SRR3722089.760437/100‑1 (MQ=60)
AAAACGTTACTTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGAATTCCCCATCCAGATAAAC < SRR3722089.701115/100‑1 (MQ=60)
AAAACGTTACTTTTG‑AAGATCTTCTGTACCAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGAATTCCCCATCCAGATAAAC < SRR3722089.927670/100‑1 (MQ=60)
AAAACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGAATTCCCCATCCAGATAAAC < SRR3722089.721576/100‑1 (MQ=60)
ACGTTACGTTTG‑AAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGAATTCCCCATCCAGATAAACTTT > SRR3722089.678657/1‑100 (MQ=60)
|
AAAATAAACGAAGAGTTTCAGGACTACGCGTGGGTAAAACCTGAAGATCTGGTGCATTATGATTTGAATGTCGCCACCCGAAAAACGTTACGTTTGAAAGGTCTTCTGTAACAATGATGACAGCCATTACTGGCTGTCAGATTGAAAATTTAGTGGTTAACGAATTCCCCATCCAGATAAACTTT > NZ_CP009273/2358348‑2358532
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
