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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,032,019 |
C→T |
19.5% |
D650N (GAC→AAC) |
zntA ← |
zinc, cobalt and lead efflux system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,032,019 | 0 | C | T | 19.5%
| 93.0
/ 16.2
| 41 | D650N (GAC→AAC) | zntA | zinc, cobalt and lead efflux system |
| Reads supporting (aligned to +/- strand): ref base C (16/17); new base T (4/4); total (20/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
TCAATCATTTGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGTTAATACCG > W3110S.gb/4031949‑4032083
|
tCAATCATTTGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCATCGGCGGTTTCCAGCGCCACGTc > 1:4365062/1‑71 (MQ=255)
tCATTTGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCtgtg > 1:2752550/1‑71 (MQ=255)
aTTTGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTTTGTGc > 1:1981014/1‑70 (MQ=255)
tGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGc < 1:3329139/70‑1 (MQ=255)
gCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTTTGTGCCGCTa > 1:1280453/1‑71 (MQ=255)
gCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTTTGTGCCGCTa > 1:4644109/1‑71 (MQ=255)
aCCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTTTGTGCCGCTAcc < 1:3371290/71‑1 (MQ=255)
aGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCt < 1:4400408/56‑1 (MQ=255)
aGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATccc < 1:4662793/71‑1 (MQ=255)
gtggtTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGa > 1:4995132/1‑71 (MQ=255)
gtggtTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGa > 1:2924088/1‑71 (MQ=255)
gggtTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTTTGTGCCGCTACCCATTGCAATCCCGAt < 1:1440832/70‑1 (MQ=255)
ggtTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATg > 1:867427/1‑71 (MQ=255)
gtTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATg < 1:1440217/70‑1 (MQ=255)
tATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTTTGTGCCGCTACCCATTGCAATCCCGATggcg > 1:1652334/1‑71 (MQ=255)
aTGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATggcgg > 1:2742468/1‑71 (MQ=255)
tGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTTTGTGCCGCTACCCATTGCAATCCCGATggcgg < 1:820436/70‑1 (MQ=255)
ttAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCt < 1:458486/71‑1 (MQ=255)
aTGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCttt < 1:4968004/70‑1 (MQ=255)
aTGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCttt < 1:4078223/70‑1 (MQ=255)
tgctgcGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCttt < 1:2670164/69‑1 (MQ=255)
ctgcGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATgg > 1:5027665/1‑57 (MQ=255)
ctgcGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCAt < 1:3466320/70‑1 (MQ=255)
ctgcGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCAt < 1:1903057/70‑1 (MQ=255)
ctgcGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCAt < 1:3539785/70‑1 (MQ=255)
ctgcGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATc < 1:630365/71‑1 (MQ=255)
ctgcGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATc > 1:3904171/1‑71 (MQ=255)
cGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGTCAGCTTTCATCGCt < 1:1013159/71‑1 (MQ=255)
tCGGCGGTTTCCAGCGCCACGTTTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATc < 1:1108396/66‑1 (MQ=255)
ttCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCAt > 1:3970164/1‑57 (MQ=255)
tCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGcgtcgt > 1:3282195/1‑70 (MQ=255)
tCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGcgtcgt > 1:2443553/1‑70 (MQ=255)
tCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGcgtcgt < 1:3057547/70‑1 (MQ=255)
tCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGcgtcgt > 1:4630117/1‑70 (MQ=255)
tCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGcgtcgt > 1:3668373/1‑70 (MQ=255)
tCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGcgtcgt > 1:3927258/1‑70 (MQ=255)
ccAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGtt < 1:2664014/70‑1 (MQ=255)
ccAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGtt < 1:330530/70‑1 (MQ=255)
aGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGtt < 1:3733230/68‑1 (MQ=255)
gcgcCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCa > 1:1689960/1‑51 (MQ=255)
ccACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGTTAATACCg > 1:3758894/1‑71 (MQ=255)
ccACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGTTAATACCg > 1:1593704/1‑71 (MQ=255)
|
TCAATCATTTGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGTTAATACCG > W3110S.gb/4031949‑4032083
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
