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 F4 I96 R1
|
227 |
23.3 |
882352 |
98.0% |
864704 |
126.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
858,772 |
T→C |
I66V (ATT→GTT) |
ybiY ← |
glycyl‑radical enzyme activating protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 858,772 | 0 | T | C | 100.0%
| 58.7
/ NA
| 17 | I66V (ATT→GTT) | ybiY | glycyl‑radical enzyme activating protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (9/8); total (9/8) |
CTCAACGCTTTTCACTTCACCACACACGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAATCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTTTCCGGGTTCTGACACCAGCGGCAGCCCAGCGAACAGCCTTTAAG > NZ_CP009273/858647‑858904
|
ctcAACGCTTTTCACTTCACCACACACGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGgcg < 1:191071/137‑1 (MQ=255)
cacacaCGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCa < 1:342171/139‑1 (MQ=255)
cacacaCGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCa < 2:405728/139‑1 (MQ=255)
ggTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTc > 1:36481/1‑139 (MQ=255)
aTGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGaca > 2:3764/1‑139 (MQ=255)
tgtCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGt > 2:83917/1‑139 (MQ=255)
tgtCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGt > 2:412385/1‑139 (MQ=255)
ggACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCg < 2:191417/138‑1 (MQ=255)
ggACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCg < 1:3764/138‑1 (MQ=255)
cagTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTGAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATa > 2:249665/1‑137 (MQ=255)
agTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATAcag < 1:47275/139‑1 (MQ=255)
agTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATAcag < 1:210353/139‑1 (MQ=255)
tCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCtgcgtgcg > 2:288176/1‑139 (MQ=255)
ttCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTTTCCgg > 2:190948/1‑110 (MQ=255)
ttCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTTTCCgg < 1:190948/110‑1 (MQ=255)
cAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTTTCCGGGTTCTGACACCAGCGGCAGCCCAGCGAACAg > 2:331213/1‑139 (MQ=255)
cTCAACCACTTCCGGCGCAGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTTTCCGGGTTCTGACACCAGCGGCAGCCCAGCGAACAGCCTTTAAg > 2:293327/1‑138 (MQ=255)
|
CTCAACGCTTTTCACTTCACCACACACGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAATCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTTTCCGGGTTCTGACACCAGCGGCAGCCCAGCGAACAGCCTTTAAG > NZ_CP009273/858647‑858904
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ 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
CCTCAACGCTTTTCACTTCACCACACACGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAATCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTTTCCGGGTTCTGACACC > NZ_CP009273/858646‑858876
|
CCTCAACGCTTTTCACTTCACCACACACGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCG < SRR3722119.193118/149‑1 (MQ=60)
TCACCACACACGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCC > SRR3722119.36801/1‑151 (MQ=60)
CCACACACGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGAC < SRR3722119.345658/151‑1 (MQ=60)
CGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAG < SRR3722119.3796/150‑1 (MQ=60)
CAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCG < SRR3722119.212613/151‑1 (MQ=60)
CAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCG < SRR3722119.47691/151‑1 (MQ=60)
agatgtgtataagagacagTAAGC‑AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTTTCCGGGTTCTGACACC < SRR3722119.192994/132‑1 (MQ=60)
|
CCTCAACGCTTTTCACTTCACCACACACGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGC‑AAACCATTCAGCGCGCGCTCAATCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTTTCCGGGTTCTGACACC > NZ_CP009273/858646‑858876
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
