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 |
3,447,843 |
A→G |
76.5% |
V1163V (GTT→GTC) |
rpoC ← |
RNA polymerase, beta prime subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,447,843 | 0 | A | G | 76.5%
| 99.4
/ 28.0
| 51 | V1163V (GTT→GTC) | rpoC | RNA polymerase, beta prime subunit |
| Reads supporting (aligned to +/- strand): ref base A (4/8); new base G (17/22); total (21/30) |
| Fisher's exact test for biased strand distribution p-value = 7.39e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
TACGGATCGCTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAAACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGGACGACGTGCTTCGAACAGGTCCGCAA > W3110S.gb/3447775‑3447910
|
tACGGATCGCTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGAc < 1:1018742/71‑1 (MQ=255)
cGGATCGCTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGa < 1:1308855/71‑1 (MQ=255)
cGGATCGCTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGa < 1:2682508/71‑1 (MQ=255)
cGGATCGCTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGa < 1:2548153/71‑1 (MQ=255)
cGGATCGCTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGa < 1:3005727/71‑1 (MQ=255)
cGGATCGCTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGa < 1:1738025/71‑1 (MQ=255)
cGGATCGCTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAAACGa < 1:1343014/71‑1 (MQ=255)
cGGATCGCTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAAACGa < 1:1548160/71‑1 (MQ=255)
cGGATCGCTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAAACGa < 1:1576260/71‑1 (MQ=255)
ggATCGCTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAAACGa < 1:2210568/70‑1 (MQ=255)
cTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCt < 1:740823/71‑1 (MQ=255)
cTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCt < 1:2097926/71‑1 (MQ=255)
cTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCt < 1:3043493/71‑1 (MQ=255)
tCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAAACGATACCGCTGATTTc < 1:2374225/71‑1 (MQ=255)
ggggTGATAACCAGACGACGTTTACCTTTGGTTTCTTTAGCGAAGGAGACGATACCGCTGATTTCAGCCAg > 1:700654/1‑71 (MQ=255)
ggggTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAg < 1:2287215/71‑1 (MQ=255)
ggggTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAg < 1:350197/71‑1 (MQ=255)
ggggTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAg < 1:341890/71‑1 (MQ=255)
ggggTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAAACGATACCGCTGATTTCAGCCAg < 1:2209004/71‑1 (MQ=255)
gggTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAg < 1:2193820/70‑1 (MQ=255)
aTAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATAcag > 1:197969/1‑49 (MQ=255)
aTAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAg > 1:187588/1‑65 (MQ=255)
aTAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAg > 1:2513635/1‑65 (MQ=255)
aTAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAg > 1:3452886/1‑65 (MQ=255)
aTAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGATTGc > 1:2829320/1‑71 (MQ=255)
aCCAGACGACGTTTACCTTTGGTTTCTTTACCTAAGGAGAc < 1:1203226/41‑1 (MQ=38)
aCCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGAc < 1:667493/41‑1 (MQ=255)
aCCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGa > 1:3596306/1‑64 (MQ=255)
aCCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGa > 1:1844061/1‑64 (MQ=255)
aCCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGa > 1:1557854/1‑64 (MQ=255)
acgacgTTTACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCtt < 1:1668842/71‑1 (MQ=255)
tttACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCt < 1:70011/39‑1 (MQ=255)
tACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGgacga > 1:2234517/1‑71 (MQ=255)
tACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGgacga > 1:1047697/1‑71 (MQ=255)
tACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGgacga > 1:1525708/1‑71 (MQ=255)
tACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGgacga > 1:3396618/1‑71 (MQ=255)
tACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGgacga > 1:3289231/1‑71 (MQ=255)
tACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGgacga > 1:1821218/1‑71 (MQ=255)
tACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGgacga > 1:2887963/1‑71 (MQ=255)
tACCTTTGGTTTCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGgacga > 1:2749240/1‑71 (MQ=255)
tACCTTTGGTTTCTTTACCGAAGGAAACGATACCGCTGAt > 1:2773008/1‑40 (MQ=255)
tACCTTTGGTTTCTTTACCGAAGGAAACGATACCGCTGAt > 1:188373/1‑40 (MQ=255)
tACCTTTGGTTTCTTTACCGAAGGAAACGATACCGCTGAt > 1:223973/1‑40 (MQ=255)
tCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGATTGCCGGc < 1:2552807/48‑1 (MQ=255)
tCTTTACCGAAGGAGACGATACCGCTGATTTCAGCCAGGATTGCCGGc < 1:572836/48‑1 (MQ=255)
tCTTTACCGAAGGAAACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGGACGACGTGCTTCGaa > 1:1386404/1‑71 (MQ=255)
aaGGAGACGATACTGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGGACGACGTGCTTCGAACAGGTCCGc < 1:242906/71‑1 (MQ=255)
aaGGAGACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGGACGACGTGCTTCGAACAGGTCCGc < 1:3411231/71‑1 (MQ=255)
aaGGAGACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGGACGACGTGCTTCGAACAGGTCCGc < 1:96774/71‑1 (MQ=255)
ggAAACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGGACGACGTGCTTCGAACAGGTCCGCaa < 1:3321145/71‑1 (MQ=255)
ggAAACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGGACGACGTGCTTCGAACAGGTCCGCaa < 1:2449621/71‑1 (MQ=255)
|
TACGGATCGCTACCGTCTACCGGGGTGATAACCAGACGACGTTTACCTTTGGTTTCTTTACCGAAGGAAACGATACCGCTGATTTCAGCCAGGATTGCCGGCTCTTTCGGACGACGTGCTTCGAACAGGTCCGCAA > W3110S.gb/3447775‑3447910
|
| 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
