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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
906,962 |
G→A |
100% |
H72Y (CAC→TAC) |
ybjS ← |
predicted NAD(P)H oxidoreductase with NAD(P)‑binding Rossmann‑fold domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 906,962 | 0 | G | A | 97.3%
| 109.5
/ ‑3.8
| 37 | H72Y (CAC→TAC) | ybjS | predicted NAD(P)H oxidoreductase with NAD(P)‑binding Rossmann‑fold domain |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (14/22); total (14/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TGGCGCGAACGTTAGCCAGATCGAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTGCCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTTGTGATGAAACCAGCTCGGTCA > W3110S.gb/906896‑907021
|
tGGCGCGAACGTTAGCCAGATCGAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACca > 1:2279627/1‑70 (MQ=255)
cgAACGTTAGCCAGATCGAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGt < 1:2605057/71‑1 (MQ=255)
cgAACGTTAGCCAGATCGAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGt < 1:2483515/71‑1 (MQ=255)
aCGTTAGCCAGATCGAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTGCCACAGCGTATc < 1:153298/71‑1 (MQ=255)
aCGTTAGCCAGATCGAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATc < 1:963474/71‑1 (MQ=255)
aCGTTAGCCAGATCGAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATc < 1:2885506/71‑1 (MQ=255)
aCGTTAGCCAGATCGAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATc < 1:1737216/71‑1 (MQ=255)
tCGAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGa > 1:1339106/1‑70 (MQ=255)
tCGAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAg > 1:1499930/1‑71 (MQ=255)
tCGAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAg > 1:2907853/1‑71 (MQ=255)
tCGAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAg > 1:1209355/1‑71 (MQ=255)
gAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGc < 1:2858914/70‑1 (MQ=255)
gAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCa > 1:434331/1‑71 (MQ=255)
aaaGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCAt < 1:1854854/71‑1 (MQ=255)
cTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACtt < 1:373206/71‑1 (MQ=255)
cTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACtt < 1:1504022/71‑1 (MQ=255)
cTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACtt < 1:830878/71‑1 (MQ=255)
tgttgtGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATc > 1:1742649/1‑50 (MQ=255)
tgttgtGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATc > 1:1126899/1‑50 (MQ=255)
tgttgtGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATc > 1:373908/1‑50 (MQ=255)
tgttgtGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACtt < 1:835112/70‑1 (MQ=255)
ttgtGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACTTTAg < 1:3577667/71‑1 (MQ=255)
gtgtCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAAt > 1:2610052/1‑49 (MQ=255)
gtgtCCCCCAGGGTGAGGTAAAGCTGGAGCAGTACCACAGCGTATCAAt > 1:2189270/1‑49 (MQ=255)
gTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTTGTGATGAAACCAGCTc > 1:1353209/1‑71 (MQ=255)
gTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTTGTGATGAAACCAGCTc > 1:2655089/1‑71 (MQ=255)
gTAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTTGTGATGAAACCAGCTc > 1:548089/1‑71 (MQ=255)
tAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTtgt < 1:769450/56‑1 (MQ=255)
tAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTtgt < 1:1196969/56‑1 (MQ=255)
tAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTtgt < 1:2320126/56‑1 (MQ=255)
tAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTtgt < 1:1680314/56‑1 (MQ=255)
tAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTTGTGATGAAACCAGCTCg < 1:3090411/71‑1 (MQ=255)
tAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTTGTGATGAAACCAGCTCg < 1:2927580/71‑1 (MQ=255)
tAAAGCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTTGTGATGAAACCAGCTCg < 1:770135/71‑1 (MQ=255)
gCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTTGTGATGAAACCAGCTCGGTCa < 1:3576828/71‑1 (MQ=255)
gCTGGAGCAGTACCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTTGTGATGAAACCAGCTCGGTCa < 1:2232969/71‑1 (MQ=255)
aGTACCACAGCGTATCAATGCCCGCGAGCATCACtt < 1:2604083/36‑1 (MQ=255)
|
TGGCGCGAACGTTAGCCAGATCGAAAGCCTGTTGTGTCCCCCAGGGTGAGGTAAAGCTGGAGCAGTGCCACAGCGTATCAATGCCCGCGAGCATCACTTTAGCTTGTGATGAAACCAGCTCGGTCA > W3110S.gb/906896‑907021
|
| 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
