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 I194 R1
|
197 |
32.2 |
1845014 |
95.2% |
1756453 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,803,201 |
A→G |
V97A (GTC→GCC) |
yniB ← |
YniB family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,803,201 | 0 | A | G | 100.0%
| 112.9
/ NA
| 32 | V97A (GTC→GCC) | yniB | YniB family protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (13/19); total (13/19) |
GAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACC > NZ_CP009273/1803122‑1803276
|
gAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAg > 1:755194/1‑90 (MQ=255)
aGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAgg > 2:376052/1‑90 (MQ=255)
aGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAgg > 2:569327/1‑90 (MQ=255)
tCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATc > 2:616264/1‑90 (MQ=255)
cacCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCAccc < 2:45565/90‑1 (MQ=255)
acCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCa < 1:616264/90‑1 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 1:354990/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 1:459776/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 1:472321/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 1:770435/1‑90 (MQ=255)
gCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATaa > 2:279466/1‑90 (MQ=255)
gCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATaa < 1:684086/90‑1 (MQ=255)
agaagCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGt > 1:656011/1‑90 (MQ=255)
cgcCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGcc < 1:577212/90‑1 (MQ=255)
cgcCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGcc < 2:745776/90‑1 (MQ=255)
gcCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGcca < 2:472321/90‑1 (MQ=255)
gcCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGcca < 2:755194/90‑1 (MQ=255)
gcCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGcca < 1:99973/90‑1 (MQ=255)
gcCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGcca < 1:873598/90‑1 (MQ=255)
cTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGccacc < 2:297527/90‑1 (MQ=255)
cATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGaaa > 2:422593/1‑52 (MQ=255)
cATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGaaa < 1:422593/52‑1 (MQ=255)
ccGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCggg < 2:354990/90‑1 (MQ=255)
ccGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCggg < 2:656011/90‑1 (MQ=255)
ggAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCAccc < 2:377054/47‑1 (MQ=255)
ggAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCAccc > 1:377054/1‑47 (MQ=255)
ggAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCa < 1:330385/48‑1 (MQ=255)
ggAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCa > 2:330385/1‑48 (MQ=255)
aTCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGtt < 1:569327/90‑1 (MQ=255)
aTCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGtt < 1:376052/90‑1 (MQ=255)
gCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATAcc < 2:913386/90‑1 (MQ=255)
gCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATAcc < 2:103022/90‑1 (MQ=255)
|
GAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACC > NZ_CP009273/1803122‑1803276
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ 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
CTTTGGCTTTTTCCAGAATGAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAAT > NZ_CP009273/1803103‑1803281
|
CTTTGGCTTTTTCCAGAATGAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGC > SRR3722072.929085/1‑100 (MQ=60)
TTTTTCCAGAATGAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATC < SRR3722072.795883/100‑1 (MQ=60)
TTTCCAGAATGAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAG > SRR3722072.768525/1‑100 (MQ=60)
tgggctcggagatgtgtataagagacaGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGA < SRR3722072.430270/73‑1 (MQ=60)
CTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAA > SRR3722072.361275/1‑100 (MQ=60)
CTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAA > SRR3722072.783981/1‑100 (MQ=60)
CTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAA > SRR3722072.468202/1‑100 (MQ=60)
CTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAA > SRR3722072.480937/1‑100 (MQ=60)
ctcgtgggctcggagatgtgtataagagacagTCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACG < SRR3722072.336182/68‑1 (MQ=60)
ACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACG < SRR3722072.627252/100‑1 (MQ=60)
CCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGT > SRR3722072.667719/1‑100 (MQ=60)
GCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCC < SRR3722072.696329/100‑1 (MQ=60)
CGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAA < SRR3722072.587521/100‑1 (MQ=60)
GCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAAT < SRR3722072.888636/100‑1 (MQ=60)
GCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAAT < SRR3722072.101822/100‑1 (MQ=60)
TCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACctgtctcttatacacatctccgagcccacgaga > SRR3722072.383778/1‑67 (MQ=60)
ATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAAT < SRR3722072.579506/100‑1 (MQ=60)
ATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAAT < SRR3722072.382758/100‑1 (MQ=60)
|
CTTTGGCTTTTTCCAGAATGAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAAT > NZ_CP009273/1803103‑1803281
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
