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 |
2,849,816 |
T→C |
E117G (GAA→GGA) |
ygbA ← |
nitrous oxide‑stimulated promoter family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,849,816 | 0 | T | C | 100.0%
| 133.9
/ NA
| 39 | E117G (GAA→GGA) | ygbA | nitrous oxide‑stimulated promoter family protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (23/16); total (23/16) |
CACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATTCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAG > NZ_CP009273/2849732‑2849896
|
cACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGa > 2:981022/1‑90 (MQ=255)
cACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGa > 2:806760/1‑90 (MQ=255)
cACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGa > 1:195208/1‑90 (MQ=255)
cACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGa > 1:366073/1‑90 (MQ=255)
cACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGa > 2:1056257/1‑90 (MQ=255)
cACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGa > 1:426181/1‑90 (MQ=255)
cACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGa > 1:460123/1‑90 (MQ=255)
cACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGa > 1:941587/1‑90 (MQ=255)
cACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCAGCCTGTCCGGCATACTATCCATGa > 2:207072/1‑90 (MQ=255)
aTGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGttt > 2:350459/1‑90 (MQ=255)
gCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGAc < 2:85055/90‑1 (MQ=255)
gCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCACACTATCCATGAGGTTTTTTCGGAc < 2:290568/90‑1 (MQ=255)
aaTCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGc < 1:1039517/90‑1 (MQ=255)
aTCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCa < 2:941587/90‑1 (MQ=255)
aaCTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCa > 1:787946/1‑76 (MQ=255)
aaCTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCa < 2:787946/76‑1 (MQ=255)
gCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCt > 2:752190/1‑90 (MQ=255)
cAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCtt > 1:1003823/1‑90 (MQ=255)
cAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCtt > 1:633681/1‑90 (MQ=255)
cAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCtt > 1:923370/1‑90 (MQ=255)
aaaTTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTg > 1:1049280/1‑90 (MQ=255)
ttGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCa < 1:908913/90‑1 (MQ=255)
ggACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGAACCGGACGCTTGTCATCgat < 2:408166/90‑1 (MQ=255)
gACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCgatg < 1:406037/90‑1 (MQ=255)
aCAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCgatga < 2:88951/90‑1 (MQ=255)
aGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCgatgaga < 2:1195597/90‑1 (MQ=255)
gATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGACATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCgatgagat > 1:366414/1‑90 (MQ=255)
tCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCgatgagatga > 2:1063797/1‑90 (MQ=255)
gCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGc > 1:1106934/1‑90 (MQ=255)
ccTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCa < 2:93413/90‑1 (MQ=255)
cTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCAc > 2:530121/1‑90 (MQ=255)
cTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCAc < 1:806760/90‑1 (MQ=255)
cTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCAc < 1:543549/90‑1 (MQ=255)
cTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCAc < 2:1001329/90‑1 (MQ=255)
cTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCAc < 1:424724/90‑1 (MQ=255)
tCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGt > 1:40571/1‑90 (MQ=255)
tCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGt > 2:1165221/1‑90 (MQ=255)
cGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTa < 2:426181/90‑1 (MQ=255)
gCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAg > 2:934927/1‑90 (MQ=255)
|
CACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATTCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAG > NZ_CP009273/2849732‑2849896
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ 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
CGACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATTCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGGATGACGCCACAGC > NZ_CP009273/2849720‑2849914
|
CGACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCAT > SRR3722089.413205/1‑100 (MQ=60)
GACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATG < SRR3722089.594381/100‑1 (MQ=60)
GACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATG < SRR3722089.582236/100‑1 (MQ=60)
ACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGA > SRR3722089.955380/1‑100 (MQ=60)
ACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGA > SRR3722089.465619/1‑100 (MQ=60)
ACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGA > SRR3722089.431324/1‑100 (MQ=60)
ACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGA > SRR3722089.197667/1‑100 (MQ=60)
ACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGA > SRR3722089.370582/1‑100 (MQ=60)
ACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGA > SRR3722089.281821/1‑100 (MQ=60)
CCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAG < SRR3722089.115207/100‑1 (MQ=60)
AATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCA < SRR3722089.1055076/100‑1 (MQ=60)
GCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCtgt > SRR3722089.798756/1‑97 (MQ=60)
GATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTT > SRR3722089.1018762/1‑100 (MQ=60)
GATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTT > SRR3722089.936840/1‑100 (MQ=60)
GATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTT > SRR3722089.641745/1‑100 (MQ=60)
ATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTG > SRR3722089.1065010/1‑100 (MQ=60)
TTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGAT < SRR3722089.922131/100‑1 (MQ=60)
TTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGACATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGAT > SRR3722089.370925/1‑100 (MQ=60)
GGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGC > SRR3722089.1123672/1‑100 (MQ=60)
gtgtataagagacagCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCA < SRR3722089.372777/85‑1 (MQ=60)
GACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCA < SRR3722089.410958/100‑1 (MQ=60)
GATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGT > SRR3722089.41081/1‑100 (MQ=60)
GATCTGCCTGTCCGGCATACTATCCATGAGGTATTTTCGGACGATATTTTTCCtgtctcttatacacatctgacgctgccgacgaccatcttagtgtaga > SRR3722089.343885/1‑53 (MQ=60)
CTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATC < SRR3722089.429851/100‑1 (MQ=60)
CTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATC < SRR3722089.817988/100‑1 (MQ=60)
CTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATC < SRR3722089.549877/100‑1 (MQ=60)
CCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGGAT > SRR3722089.35554/1‑100 (MQ=60)
CTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGGATGACGCCAC > SRR3722089.149712/1‑100 (MQ=60)
ATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGGATGACGCCACAG > SRR3722089.246359/1‑100 (MQ=60)
TCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGGATGACGCCACAGC < SRR3722089.504539/100‑1 (MQ=60)
TCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGGATGACGCCACAGC > SRR3722089.1225900/1‑100 (MQ=60)
TCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGGATGACGCCACAGC > SRR3722089.143376/1‑100 (MQ=60)
|
CGACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATTCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGGATGACGCCACAGC > NZ_CP009273/2849720‑2849914
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
