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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,701,075 |
T→C |
13.5% |
L107L (TTA→TTG) |
rbsC ← |
D‑ribose transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,701,075 | 0 | T | C | 13.5%
| 89.7
/ 7.9
| 37 | L107L (TTA→TTG) | rbsC | D‑ribose transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (16/16); new base C (3/2); total (19/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.67e-01 |
GCGATAAACGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATGCAGCAACTGCGC > W3110S.gb/3701010‑3701145
|
gCGATAAACGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAAcgc < 1:1522669/71‑1 (MQ=255)
tAAACGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCgag < 1:1194315/70‑1 (MQ=255)
aaCGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGagag > 1:1719798/1‑70 (MQ=255)
cGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGagcag > 1:250393/1‑71 (MQ=255)
cGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGagcag > 1:2286268/1‑71 (MQ=255)
tGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGagcagcagc < 1:1487618/71‑1 (MQ=255)
gACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGa > 1:2583133/1‑71 (MQ=255)
gACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGa > 1:1570162/1‑71 (MQ=255)
gACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGa > 1:1478943/1‑71 (MQ=255)
gACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAAAGCGAGAGCAGCAGCGa > 1:974086/1‑71 (MQ=255)
gACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCCAACGCGAGagcagcagc < 1:2009368/69‑1 (MQ=255)
aCGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGa < 1:954684/70‑1 (MQ=255)
gACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGc < 1:1467988/70‑1 (MQ=255)
cTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAg > 1:1117926/1‑66 (MQ=255)
cTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGccac > 1:1091159/1‑70 (MQ=255)
tCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAgc > 1:1525262/1‑71 (MQ=255)
tCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAg > 1:2097826/1‑70 (MQ=255)
gCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAgcg < 1:1271315/70‑1 (MQ=255)
aCAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGccac > 1:1579265/1‑62 (MQ=255)
aCAATCACCCCGGTTACCGCACCAATTGCGGCACCCAACGCGAGAGCAGCAGCGACAGCCACCAGCGCa > 1:84146/1‑69 (MQ=255)
cAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCAtt < 1:1190772/70‑1 (MQ=255)
aCCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTc < 1:1075786/71‑1 (MQ=255)
aCCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTc < 1:1107441/71‑1 (MQ=255)
aCCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTc < 1:2576524/71‑1 (MQ=255)
aCCCCGGTTACCGCACCAATTGCGGCACCCAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGa > 1:1042888/1‑67 (MQ=255)
ttACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGAc < 1:583116/61‑1 (MQ=255)
tACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAAt > 1:784/1‑66 (MQ=255)
aCCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCcga > 1:2793398/1‑70 (MQ=255)
cACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCcgacga > 1:2433890/1‑69 (MQ=255)
cACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATa < 1:1312796/71‑1 (MQ=255)
aaTTGCGGCACCCAACGCGAGAGCAGCAGCGACAGccac > 1:2476243/1‑39 (MQ=255)
ttGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAAt < 1:2427339/55‑1 (MQ=255)
tGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCaa > 1:1418579/1‑53 (MQ=255)
cGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATgcagc < 1:1420314/70‑1 (MQ=255)
cGGCACCCAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATgcagca < 1:216936/71‑1 (MQ=255)
ccTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCcgacga < 1:562909/55‑1 (MQ=255)
ccTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCcgacga < 1:2205697/55‑1 (MQ=255)
tAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGAGTTCAATGCCGACGATAGATGCAGCAACTgcgc > 1:430239/1‑71 (MQ=255)
tAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGa > 1:956682/1‑57 (MQ=255)
tAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATGCAGCAACTgcgc > 1:569687/1‑71 (MQ=255)
tAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATGCAGCAACTgcgc > 1:2692343/1‑71 (MQ=255)
tAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATGCAGCAACTgcgc > 1:1358274/1‑71 (MQ=255)
tAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATGCAGCAACTgc > 1:1050286/1‑69 (MQ=255)
|
GCGATAAACGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATGCAGCAACTGCGC > W3110S.gb/3701010‑3701145
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
