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 |
2,295,693 |
C→T |
8.5% |
A18T (GCG→ACG) |
ccmH ← |
heme lyase, CcmH subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,295,693 | 0 | C | T | 8.5%
| 146.0
/ 3.7
| 47 | A18T (GCG→ACG) | ccmH | heme lyase, CcmH subunit |
| Reads supporting (aligned to +/- strand): ref base C (26/17); new base T (2/2); total (28/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01 |
TCTTCAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATCATCAGCATCAGCACGCCCAATAAAAACCTCATTGTGCGGC > W3110S.gb/2295626‑2295752
|
tcttcAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAg > 1:182545/1‑71 (MQ=255)
cttcAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAgc > 1:409491/1‑71 (MQ=255)
cttcAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAgc > 1:3596346/1‑71 (MQ=255)
cttcAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAgc > 1:1748375/1‑71 (MQ=255)
cttcAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAgc > 1:1845508/1‑71 (MQ=255)
cttcAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAgc > 1:3282898/1‑71 (MQ=255)
cttcAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAgc > 1:2923199/1‑71 (MQ=255)
cttcAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAg > 1:1241724/1‑70 (MQ=255)
cttcAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAg > 1:1724975/1‑70 (MQ=255)
cttcAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAg > 1:282543/1‑70 (MQ=255)
ctccAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGTCAgc > 1:1925166/4‑71 (MQ=255)
cAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAgcg < 1:1331797/69‑1 (MQ=255)
cAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAgcg < 1:2005012/69‑1 (MQ=255)
cAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCt > 1:994533/1‑71 (MQ=255)
cAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCt > 1:3395416/1‑71 (MQ=255)
gACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCg > 1:452404/1‑68 (MQ=255)
gACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCg > 1:3460926/1‑68 (MQ=255)
aCGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGGAACACATCGATGGTCGCCAGCGCTGAGCCGgaga < 1:2560681/71‑1 (MQ=255)
aCGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGgaga < 1:3592446/71‑1 (MQ=255)
aCGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGgaga < 1:1887326/71‑1 (MQ=255)
aCGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGgag < 1:3503518/70‑1 (MQ=255)
aCGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGgag < 1:1895298/70‑1 (MQ=255)
cGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCTACACATCGATGGTCGTCAGCGCTGAGCCGCAGat < 1:3670997/71‑1 (MQ=255)
cGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGTCAGCGCTGAGCCGGAGat < 1:3032507/71‑1 (MQ=255)
tgttgtTCCTGTGCTTCATCTTTAAACTTCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATcatcag > 1:1313046/1‑71 (MQ=255)
gttgttCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATcatcag > 1:537544/1‑70 (MQ=255)
gttgttCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATcatcag > 1:254655/1‑70 (MQ=255)
gttgttCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATcatcag > 1:2580090/1‑70 (MQ=255)
ttCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATcatcagcatc < 1:2134204/70‑1 (MQ=255)
ccTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATcatcagcatcag < 1:2177002/70‑1 (MQ=255)
ccTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATcatcagcatcag < 1:1632927/70‑1 (MQ=255)
tgtgCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATCATCAGCATCAGCAc > 1:2971511/1‑71 (MQ=255)
tgtgCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATCATCAGCATCAGCAc > 1:1908924/1‑71 (MQ=255)
cATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATCATCAGCATCAGCACGCCCaa > 1:103507/1‑70 (MQ=255)
cATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATCATCAGCATCAGCACGCCCa > 1:2261908/1‑69 (MQ=255)
aTCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGatcat > 1:426166/1‑51 (MQ=255)
aTCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGatcat > 1:271266/1‑51 (MQ=255)
tttAAACTGCAACACATCGATGGGCGCCAGCGCTGAGCCGGAGATCATCAGCATCAGCACGCCCAATaaa > 1:694436/1‑70 (MQ=255)
tAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATCATCAGCATCAGCACGCCCAATaaa < 1:3586605/68‑1 (MQ=255)
tAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATCATCAGCATCAGCACGCCCAATaaa < 1:2751961/68‑1 (MQ=255)
tAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATCATCAGCATCAGCACGCCCAATaaa < 1:646259/68‑1 (MQ=255)
cacaTCGATGGTCGCCAGCGCTGAGCCGGAGATCAtcagcatcagca < 1:2971696/47‑1 (MQ=255)
cacaTCGATGGTCGCCAGCGCTGAGCCGGAGATCATCAGCATCAGCACGCCCAATAAAAACCTc < 1:3487539/64‑1 (MQ=255)
cacaTCGATGGTCGCCAGCGCTGAGCCGGAGATCATCAGCATCAGCACGCCCAATAAAAACCTc < 1:2730348/64‑1 (MQ=255)
cacaTCGATGGTCGCCAGCGCTGAGCCGGAGATCATCAGCATCAGCACGCCCAATAAAAACCTc < 1:573326/64‑1 (MQ=255)
caTCGATGGTCGCCAGCGCTGAGCCGGAGATCATTAGCATCAGCACGCCCAATAAAAACCTCATtgtg > 1:2966605/1‑68 (MQ=255)
aTCGATGGTCGTCAGCGCTGAGCCGGAGATCATCAGCATCAGCACGCCCAATAAAAACCTCATTGTGCGGc > 1:2080044/1‑71 (MQ=255)
|
TCTTCAGTGAGCTGACGGAACTGTTGTTCCTGTGCTTCATCTTTAAACTGCAACACATCGATGGTCGCCAGCGCTGAGCCGGAGATCATCAGCATCAGCACGCCCAATAAAAACCTCATTGTGCGGC > W3110S.gb/2295626‑2295752
|
| 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
