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 |
579,680 |
G→A |
100% |
intergenic (+371/‑377) |
ybcW → / → nohB |
hypothetical protein/DNA packaging protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 579,680 | 0 | G | A | 100.0%
| 118.9
/ NA
| 43 | intergenic (+371/‑377) | ybcW/nohB | hypothetical protein/DNA packaging protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/22); total (21/22) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GGAAAGCGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCGTATTCAGTGTCGCTGATTTGTATTGTCTGAAGTTGTTTTTACGTTA > W3110S.gb/579616‑579726
|
ggAAAGCGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTc < 1:196086/70‑1 (MQ=25)
ggAAAGCGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTc < 1:1615882/70‑1 (MQ=25)
ggAAAGCGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTc < 1:3104729/70‑1 (MQ=25)
ggAAAGCGGATGTTGCGGGTTGTTGTTCTGCGGGTGCTGTTCTTAGTTGACATGAGGTTGCCCCATATTc < 1:321343/70‑1 (MQ=255)
aaaGCGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAgt < 1:2409385/71‑1 (MQ=21)
aaaGCGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAgt < 1:2823533/71‑1 (MQ=21)
aaGCGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAgtg > 1:1238666/1‑71 (MQ=21)
aaGCGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAgtg > 1:2323956/1‑71 (MQ=21)
aaGCGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAgtg > 1:793046/1‑71 (MQ=21)
aaGCGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAgtg > 1:40817/1‑71 (MQ=21)
aaGCGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAgtg > 1:483298/1‑71 (MQ=21)
aaGCGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTT‑ACATGAGGTTGCCCCATATTCAgtgt > 1:1644071/1‑71 (MQ=11)
cGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAGTGTCg > 1:3249271/1‑71 (MQ=21)
cGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAGTGTCg > 1:573946/1‑71 (MQ=21)
tGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGa < 1:2770557/71‑1 (MQ=21)
gCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATa > 1:593017/1‑53 (MQ=255)
gCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGATTTg > 1:1816347/1‑71 (MQ=21)
gCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGATTTg > 1:2626000/1‑71 (MQ=21)
cGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGGTGCCCCATATTCAGTGTCGCTGATTTg < 1:2653780/70‑1 (MQ=255)
tgttgttCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCt < 1:2448676/59‑1 (MQ=255)
tgttgttCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCt < 1:2155083/59‑1 (MQ=255)
tgttgttCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCt < 1:1465150/59‑1 (MQ=255)
gttgttCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGATTTGTATTGTc > 1:1941187/1‑71 (MQ=255)
gttgttCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGATTTGTATTGTc > 1:1936800/1‑71 (MQ=255)
ttCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGATTTGTATTGTCTGa < 1:169011/70‑1 (MQ=25)
gttctgttctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGATTTGTATTGTCTGAAGTTGtttt < 1:2668841/71‑1 (MQ=21)
ctgttctTAGTTGACATGAGGTTGCCCCATATTCAg > 1:59253/1‑36 (MQ=255)
ctgttctTAGTTGACATGAGGTTGCCCCATATTCAg > 1:2765984/1‑36 (MQ=255)
gttctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGATTTGTATTGTCTGAAGTTGTTTTTACGt > 1:2871498/1‑71 (MQ=21)
ttctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCt < 1:1840218/40‑1 (MQ=255)
ttctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCt < 1:496512/40‑1 (MQ=255)
ttctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCt < 1:1473621/40‑1 (MQ=255)
ttctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCt < 1:1496453/40‑1 (MQ=255)
ttctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCt < 1:3068206/40‑1 (MQ=255)
ttctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCt < 1:2413568/40‑1 (MQ=255)
ttctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCCCt < 1:541460/40‑1 (MQ=14)
ctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGa > 1:2076773/1‑40 (MQ=255)
ctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGa > 1:498312/1‑40 (MQ=255)
ctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGATTTGTATTGTCTGAAGTTGTTTTTACGtt > 1:915168/1‑69 (MQ=25)
ctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGATTTGTATTGTCTGAAGTTGTTTTTACGtt > 1:1195448/1‑69 (MQ=25)
ctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGATTTGTATTGTCTGAAGTTGTTTTTACGtt > 1:1368649/1‑69 (MQ=25)
ctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGATTTGTATTGTCTGAAGTTGTTTTTACGTTa < 1:2458058/70‑1 (MQ=25)
ctTAGTTGACATGAGGTTGCCCCATATTCAGTGTCGCTGATTTGTATTGTCTGAAGTTGTTTTTACGTTa < 1:2011996/70‑1 (MQ=25)
|
GGAAAGCGGATGTTGCGGGTTGTTGTTCTGCGGGTTCTGTTCTTAGTTGACATGAGGTTGCCCCGTATTCAGTGTCGCTGATTTGTATTGTCTGAAGTTGTTTTTACGTTA > W3110S.gb/579616‑579726
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
