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 |
478,343 |
C→T |
47.4% |
A45T (GCT→ACT) |
ylaC ← |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 478,343 | 0 | C | T | 47.4%
| 2.4
/ 51.7
| 38 | A45T (GCT→ACT) | ylaC | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (6/14); new base T (5/13); total (11/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.89e-01 |
CAACCAGTAGCCAGACAGAGCCTGACAGCGTTTCGGACTGCAACATCACCGCCAGGGTGGCAAAAAAAGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGCGGGGTTTGTTGTC > W3110S.gb/478274‑478412
|
cAACCAGTAGCCAGACAGAGCCTGACAGCGTTTCGGACTGCAACATCACCGCCAGGGTGGCAAAAAAAGc < 1:1197904/70‑1 (MQ=255)
aaCCAGTAGCCAGACAGAGCCTGACAGCGTTTCGGACTGCAACATCACCGCCAGGGTGGCAAAAAAAGc < 1:3757719/69‑1 (MQ=255)
ccAGTAGCCAGACAGAGCCTGACAGCGTTTCGGACTGCAACATCACCGCCAGGGTGGCAAAAAAAGTAACg < 1:2389856/71‑1 (MQ=255)
cAGTAGCCAGACAGAGCCTGACAGCGTTTCGGACTGCAACATCACCGCCAGGGTGGCAAAAAAAGCAACGt < 1:355067/71‑1 (MQ=255)
aGTAGCCAGACAGAGCCTGACAGCGTTTCGGACTGCAACATCACCGCCAGGGTGGCAAAAAAAGTAACGTa < 1:205817/71‑1 (MQ=255)
aGTAGCCAGACAGAGCCTGACAGCGTTTCGGACTGCAACATCACCGCCAGGGTGGCAAAAAAAGCAACGTa < 1:4822172/71‑1 (MQ=255)
aGCCAGACAGAGCCTGACAGCGTTTCGGACTGCAACATCACCGCCAGGGTGGCAAAAAAAGCAACGTACa < 1:2026268/70‑1 (MQ=255)
cagaGCCTGACAGCGTTTCGGACTGCAACATCACCGCCAGGGTGGCAAAAAAAGTAACGTACATACCGAt > 1:759372/1‑70 (MQ=255)
gTTTCGGACTGCAACATCACCGCCAGGGTGGCAAAAAAAGCGACGTa < 1:3746817/47‑1 (MQ=255)
tCGGACTGCAACATCACCGCCAGGGTGGCAAAAAAAGTAACGTACATACCGATAAACAGCCCCGGATGtt > 1:4143341/1‑70 (MQ=255)
tGCAACATCACCGCCAGGGTGGCAAAAAAAGTAACGTACATACCGATa < 1:3106801/48‑1 (MQ=255)
cAACATCACCGCCAGGGTGGCAAAAAAAGCAACGTAAATACCGATAAACAGCCACGGATGTTTACGGAt < 1:337971/69‑1 (MQ=255)
aCATCACCGCCAGGGTGGCAAAAAAAGTAACGTACATACCGATAAACAGCCCCgg < 1:2109662/55‑1 (MQ=255)
aCATCACCGCCAGGGTGGCAAAAAAAGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATaaaa < 1:2737331/71‑1 (MQ=255)
aCATCACCGCCAGGGTGGCAAAAAAAGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATaaa > 1:3919325/1‑70 (MQ=255)
cATCACCGCCAGGGTGGCAAAAAAAGCAACGTACa < 1:3340856/35‑1 (MQ=255)
tCACCGCCAGGGTGGCAAAAAAAGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACt > 1:4476065/1‑70 (MQ=255)
aGGGTGGAAAAAAAAGTAACGTACATACCGATAAACAGCCCCGGATGtt < 1:5028612/49‑1 (MQ=255)
ggTGGCAAAAAAAGTAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGc < 1:4873021/71‑1 (MQ=255)
ggTGGCAAAAAAAGTAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGc < 1:1112600/71‑1 (MQ=255)
ggTGGCAAAAAAAGTAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGc < 1:1228430/71‑1 (MQ=255)
tGGCAAAAAAAGTAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGCgg > 1:1326144/1‑71 (MQ=255)
gCAAAAAAAGTAACGTACATACCGATAAACAGCCACGGATGTTTACGGATAAAACTGATACTAAAGCgggg > 1:2008627/1‑71 (MQ=255)
gCAAAAAAAGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATaaaa > 1:2786818/1‑54 (MQ=255)
aaaaaaaGTAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGa > 1:2846488/1‑56 (MQ=255)
aaaaaaaGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGCGGGGtt < 1:3930007/71‑1 (MQ=255)
aaaaaaGTAACGTACATACCGATAAACAGCCCCGGATGtt < 1:3415980/40‑1 (MQ=255)
aaaaaaGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATaaaa > 1:990323/1‑51 (MQ=255)
aaaaaaGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGAt > 1:3818881/1‑56 (MQ=255)
aaaaaaGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGCGGGGttt < 1:706424/71‑1 (MQ=255)
aaaaaaGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGCGGGGtt < 1:692527/70‑1 (MQ=255)
aaaaaGTAACGTACATACCGATAAACAGCCCCGGATGtt < 1:1389420/39‑1 (MQ=255)
aaaaaGTAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGCGGGGTttg < 1:3046823/71‑1 (MQ=255)
aaaaaGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGCGGGGTttg < 1:3817972/71‑1 (MQ=255)
aaaaaGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGCGGGGTttg < 1:1106562/71‑1 (MQ=255)
aaaGTAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGCGGGGTttgtt < 1:2018263/71‑1 (MQ=255)
aaaGTAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGCGGGGTttgtt < 1:3502288/71‑1 (MQ=255)
aaGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATaaaa > 1:2579406/1‑47 (MQ=255)
aGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGCGGTGTTtgttgt < 1:3620127/71‑1 (MQ=255)
gCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGCGGGGTTTGTTGTc < 1:2036790/71‑1 (MQ=255)
|
CAACCAGTAGCCAGACAGAGCCTGACAGCGTTTCGGACTGCAACATCACCGCCAGGGTGGCAAAAAAAGCAACGTACATACCGATAAACAGCCCCGGATGTTTACGGATAAAACTGATACTAAAGCGGGGTTTGTTGTC > W3110S.gb/478274‑478412
|
| 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
