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 |
1,393,837 |
C→T |
40.4% |
R45* (CGA→TGA) |
ycjZ → |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,393,837 | 0 | C | T | 40.4%
| 31.4
/ 53.2
| 47 | R45* (CGA→TGA) | ycjZ | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base C (11/17); new base T (7/12); total (18/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.91e-01 |
ACTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCA > W3110S.gb/1393768‑1393901
|
aCTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACg < 1:3295546/71‑1 (MQ=255)
cTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAAc < 1:3308528/69‑1 (MQ=255)
cTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGa > 1:1747908/1‑71 (MQ=255)
cTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGa > 1:173445/1‑71 (MQ=255)
gTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGa < 1:1064567/68‑1 (MQ=255)
gTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGa < 1:3371917/68‑1 (MQ=255)
gTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGa < 1:1691320/68‑1 (MQ=255)
tGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg < 1:2972430/71‑1 (MQ=255)
agcagcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTg < 1:455601/67‑1 (MQ=255)
gcagcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg < 1:2259229/67‑1 (MQ=255)
gcagcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg < 1:1074731/67‑1 (MQ=255)
gcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCg < 1:1552502/71‑1 (MQ=255)
gcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg < 1:1576373/64‑1 (MQ=255)
gcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg < 1:4507880/64‑1 (MQ=255)
gcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg < 1:2794445/64‑1 (MQ=255)
cccGCCTGAGCATGGCGCGGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg < 1:2327515/63‑1 (MQ=255)
cGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTggg > 1:752398/1‑62 (MQ=255)
cGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCt > 1:2466502/1‑71 (MQ=255)
tGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg < 1:1170873/57‑1 (MQ=255)
tGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCCTATAGAAGAACGATTgg < 1:313014/57‑1 (MQ=255)
aGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGa > 1:39202/1‑51 (MQ=255)
cATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGAcgc > 1:1985/1‑71 (MQ=255)
aTGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGAcgcg < 1:3915582/71‑1 (MQ=255)
gcgcAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAAc < 1:4228241/71‑1 (MQ=255)
aGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGAGGCTTCTGACGCGAACCa > 1:2169088/1‑65 (MQ=255)
aGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCAcgcg > 1:724664/1‑69 (MQ=255)
cTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGAt > 1:2790593/1‑42 (MQ=255)
cTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGAt > 1:4757044/1‑42 (MQ=255)
tAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCgt < 1:3590092/70‑1 (MQ=255)
aGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCgttg < 1:1886085/70‑1 (MQ=255)
aGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCgttg < 1:1405340/70‑1 (MQ=255)
aGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCgttgt < 1:2139905/71‑1 (MQ=255)
gCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCgttgtt > 1:2888922/1‑71 (MQ=255)
cAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTcc < 1:1437955/71‑1 (MQ=255)
aGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCa < 1:243325/71‑1 (MQ=255)
aGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTcc > 1:4860990/1‑70 (MQ=255)
aGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCgttg > 1:4124259/1‑62 (MQ=255)
gTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGa < 1:3853891/71‑1 (MQ=255)
cgtcgtATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGc > 1:4020279/1‑71 (MQ=255)
cgtcgtATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGc < 1:2347462/71‑1 (MQ=255)
tcgtATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTcc < 1:4697876/60‑1 (MQ=255)
gtATAGAAGAACGATTGGGATTG‑GGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGc > 1:150248/1‑70 (MQ=255)
tataGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCg < 1:5079377/67‑1 (MQ=255)
tataGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCa < 1:3777728/47‑1 (MQ=255)
tataGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCa < 1:2476401/47‑1 (MQ=255)
taGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCggg > 1:2218324/1‑67 (MQ=255)
gaagaaTGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCa > 1:3333591/1‑71 (MQ=255)
gaagaaCGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCa > 1:4597321/1‑71 (MQ=255)
|
ACTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCA > W3110S.gb/1393768‑1393901
|
| 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
