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 |
|
A5 F71 I1 R1
|
31 |
24.1 |
564604 |
94.3% |
532421 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
USA300TCH1516_ALE |
1,834,002 |
T→C |
V133A (GTA→GCA) |
osmC → |
Peroxiredoxin OsmC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | USA300TCH1516_ALE | 1,834,002 | 0 | T | C | 100.0%
| 69.8
/ NA
| 23 | V133A (GTA→GCA) | osmC | Peroxiredoxin OsmC |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (9/14); total (9/14) |
CGGAAAATTCAGTATGTCAAAAATTGTGCACCATCCTCAAATTCAAATTCCAAGTGATCAAATAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGTAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGC > USA300TCH1516_ALE/1833868‑1834105
|
cGGAAAATTCAGTATGTCAAAAATTGTGCACCATCCTCAAATTCAAATTCCAAGTGATCAAATAGCACAATTAGAAAAGCGATTACCAAAATTGATAGCAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGaa‑‑a > 2:207918/1‑141 (MQ=255)
cGGAAAATTCAGTATGTCAAAAATTGTGCACCATCCTCAAATTCAAATTCCAAGTGATCAAATAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGaa‑‑a > 2:205281/1‑141 (MQ=255)
cGGAAAATTCAGTATGTCAAAAATTGTGCACCATCCTCAAATTCAAATTCCAAGTGATCAAATAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGaa‑‑a > 2:216247/1‑141 (MQ=255)
cGGAAAATTCAGTATGTCAAAAATTGTGCACCATCCTCAAATTCAAATTCCAAGTGATCAAATAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGaa‑‑a > 1:20813/1‑141 (MQ=255)
caatATGTCAAACACTGTTCAACAGTCTCAAATTCAAATGACAAGTGATCAAATAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGa < 1:105884/138‑1 (MQ=255)
gtgCACCATCCTCAAATTCAAATTCCAAGTGATCAAATAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACCTAAGAATCTATccc > 1:144676/1‑141 (MQ=255)
tgCACCATCCTCAAAATCAAATTCCAAGTGATCAAATAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCca < 2:55102/141‑1 (MQ=255)
cATCCTCAAGTGCAAGTTCCAAGGGATCAAATAGCACAACCAATCTCAGAAGGGTCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCAtt < 2:127132/141‑1 (MQ=255)
aaattcaaattcCAAGTGATCAAATAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCa > 2:121183/1‑141 (MQ=255)
tcaaaGTGAGCAAATAGCACAATTAGAAAAGCGATTATCAAAATTGATAACAATTGCAGATAATAATTGCATGATGTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCg < 2:244873/138‑1 (MQ=255)
cgaGTGATGAAATAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTACATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGtt < 2:270975/139‑1 (MQ=255)
gTGATCAAATAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAg < 1:171790/141‑1 (MQ=255)
aaaTAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCCGAT‑CT‑CAACAATGATGATACGCCACCAAAACCCTATCGCTTCATTCAGGCCAAATAAAATCGTTAAGTGATaa < 1:207918/141‑1 (MQ=255)
aaaTAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATaa < 1:216247/141‑1 (MQ=255)
aaaTAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATaa < 2:20813/141‑1 (MQ=255)
aTAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACg < 1:30104/141‑1 (MQ=255)
tAGAAAAGAGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGAc < 2:89985/141‑1 (MQ=255)
aTTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGt > 1:228969/1‑141 (MQ=255)
tACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTa < 1:198321/141‑1 (MQ=255)
tACCAAAATTGACAACAATTGCAGATAATAACTGCATGATTTAAAATGCTGCAATAA‑‑ATAATGTAGACATCACAATCTATCTCATCATTAAGACCAAATAAAATCGTTAAGTTATAACGTTTGTTCGACAACATAGcacta > 2:181281/1‑137 (MQ=255)
aCCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTAt < 1:221886/141‑1 (MQ=255)
tAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGCA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGCTCGTTTACCACTATATCCATATCACTTTTTTAg > 2:112940/1‑141 (MQ=255)
aCAATTGCAGATAATAATTGCATGATTTCAAATGCTGCAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGc < 1:3644/141‑1 (MQ=255)
|
CGGAAAATTCAGTATGTCAAAAATTGTGCACCATCCTCAAATTCAAATTCCAAGTGATCAAATAGCACAATTAGAAAAGCGATTACCAAAATTGATAACAATTGCAGATAATAATTGCATGATTTCAAATGCTGTAAGAA‑‑ATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGC > USA300TCH1516_ALE/1833868‑1834105
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
