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 |
4,568,721 |
A→G |
I145T (ATC→ACC) |
mcrB ← |
5‑methylcytosine‑specific restriction endonuclease subunit McrB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,568,721 | 0 | A | G | 100.0%
| 89.5
/ NA
| 25 | I145T (ATC→ACC) | mcrB | 5‑methylcytosine‑specific restriction endonuclease subunit McrB |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (14/11); total (14/11) |
TTTGAGTATCGTCTCTATTGTGGTTTCAGGGATAAACAAATCATTTAACGCATCTTCCAGACAGTATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGATTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACCCGAAGTTGCCTGAAAATACTCTGCGATTGTTT > NZ_CP009273/4568588‑4568856
|
tttGAGTATCGTCTCTATTGTGGTTTCAGGGATAAACAAATCATTTAACGCATCTTCCAGACAGTATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTAtg < 2:308003/139‑1 (MQ=255)
tttGAGTATCGTCTCTATTGTGGTTTCAGGGATAAACAAATCATTTAACGCATCTTCCAGACAGTATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTAtg < 2:221628/139‑1 (MQ=255)
tCAGGGATAAACAAATCATTTAACGCATCTTCCAGACAGTATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCggg > 2:396533/1‑139 (MQ=255)
ccAGACAGTATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTggg > 1:313905/1‑138 (MQ=255)
cAGACAGTATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGaa < 2:201760/139‑1 (MQ=255)
tATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAAc > 2:89205/1‑133 (MQ=255)
tATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAAc < 1:89205/133‑1 (MQ=255)
tATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCg > 2:147346/1‑138 (MQ=255)
tATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCg > 2:324711/1‑138 (MQ=255)
tttttGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAgg > 2:203395/1‑126 (MQ=255)
tttttGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAgg < 1:203395/126‑1 (MQ=255)
tttttGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTg > 2:100127/1‑139 (MQ=255)
tttttGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTg > 1:286754/1‑139 (MQ=255)
ggTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTAtttt < 2:150457/138‑1 (MQ=255)
tGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTa < 1:324711/139‑1 (MQ=255)
acacTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGatat < 1:322370/138‑1 (MQ=255)
tCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAAc < 2:205110/70‑1 (MQ=255)
tCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAAc > 1:205110/1‑70 (MQ=255)
gTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACCCGAAGTTGCCTGAAAATACTCTGCGATTGtt > 2:24246/1‑139 (MQ=255)
gTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACCCGAAGTTGCCTGAAAATACTCTGCGATTGtt > 2:390664/1‑139 (MQ=255)
gTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACATTTTGGGAACAgg < 1:400295/71‑1 (MQ=255)
gTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACATTTTGGGAACAgg > 2:400295/1‑71 (MQ=255)
ttGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACCCGAAGTTGCCTGAAAATACTCTGCGa < 2:124399/133‑1 (MQ=255)
ttGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACCCGAAGTTGCCTGAAAATACTCTGCGa > 1:124399/1‑133 (MQ=255)
ttGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACCCGAAGTTGCCTGAAAATACTCTGCGATTGttt > 1:428889/1‑139 (MQ=255)
|
TTTGAGTATCGTCTCTATTGTGGTTTCAGGGATAAACAAATCATTTAACGCATCTTCCAGACAGTATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGATTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACCCGAAGTTGCCTGAAAATACTCTGCGATTGTTT > NZ_CP009273/4568588‑4568856
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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
TAACGCATCTTCCAGACAGTATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGATTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACCCGAAGTTGCCTGAAAATACTCTGCGATTGTTTTAGGTATG > NZ_CP009273/4568633‑4568864
|
TAACGCATCTTCCAGACAGTATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGA > SRR3722119.317099/1‑150 (MQ=60)
CAGACAGTATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAG < SRR3722119.90082/151‑1 (MQ=60)
cagGTATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGAC < SRR3722119.205572/148‑1 (MQ=60)
agacgtcatacgtgattcgccttagtctcgtgggctcggagatgtgtataagagacagAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACATTTTGGGAACAGGCGTAATAGGTC < SRR3722119.404292/93‑1 (MQ=60)
GTATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGT > SRR3722119.289711/1‑151 (MQ=60)
GTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACC < SRR3722119.328025/151‑1 (MQ=60)
AACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACCCGAAGT < SRR3722119.325662/150‑1 (MQ=60)
TTAATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGctgtctcttatacacatctccgagcccacgagactaaggcgaatgtcgtatgccgtctt > SRR3722119.207307/1‑92 (MQ=60)
ATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACCCGAAGTTGCCTGAAAATACTCTGCGATTGTTTT > SRR3722119.125638/1‑151 (MQ=60)
ATTTATAGTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACCCGAAGTTGCCTGAAAATACTCTGCGATTGTTTT > SRR3722119.433196/1‑151 (MQ=60)
GTCGTTGGTTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACCCGAAGTTGCCTGAAAATACTCTGCGATTGTTTTAGGTATG > SRR3722119.233676/1‑151 (MQ=60)
|
TAACGCATCTTCCAGACAGTATGATTCAGTTTTTGACATAGGTGGAATAACACTCTTGCCAGAATTAAATATTAATTTATAGTCGTTGATTATGTTGTCCAGCATAGAGGCAAATCGGGTGTAATCAATACCCTGTGAGACTTTTTGGGAACAGGCGTAATAGGACTGTCCGTATTTTTTAGGATATACACCCGAAGTTGCCTGAAAATACTCTGCGATTGTTTTAGGTATG > NZ_CP009273/4568633‑4568864
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
