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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
922,063 |
C→T |
23.8% |
R45* (CGA→TGA) |
ycjZ → |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 922,063 | 0 | C | T | 23.8%
| 116.0
/ 32.8
| 63 | R45* (CGA→TGA) | ycjZ | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base C (16/32); new base T (7/8); total (23/40) |
| Fisher's exact test for biased strand distribution p-value = 3.73e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCTTTT > minE/921994‑922133
|
aCTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAAc < 1:755643/70‑1 (MQ=255)
gTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTg > 1:3505915/1‑71 (MQ=255)
gTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGAtt < 1:830990/70‑1 (MQ=255)
gTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGAt < 1:2413774/69‑1 (MQ=255)
gcagcaGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGa < 1:3159423/66‑1 (MQ=255)
agcagcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg < 1:2616261/68‑1 (MQ=255)
agcagcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGAt > 1:3790493/1‑71 (MQ=255)
gcagcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGAtt < 1:2851661/71‑1 (MQ=255)
gcagcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGAtt < 1:2173338/71‑1 (MQ=255)
cagcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTg < 1:1371325/71‑1 (MQ=255)
cagcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTg > 1:1776522/1‑71 (MQ=255)
gCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCtt > 1:3533507/1‑71 (MQ=255)
ccTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGa < 1:1383423/61‑1 (MQ=255)
ccTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGa < 1:2206413/61‑1 (MQ=255)
ccTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTc < 1:3418618/71‑1 (MQ=255)
ccTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTc < 1:392703/71‑1 (MQ=255)
cTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCt < 1:2185447/71‑1 (MQ=255)
cTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg > 1:413209/1‑58 (MQ=255)
cTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCt < 1:2486172/71‑1 (MQ=255)
aGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGAc > 1:3631828/1‑71 (MQ=255)
aTGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGAcgcg < 1:465677/71‑1 (MQ=255)
aTGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGAcgc > 1:3798343/1‑70 (MQ=255)
aTGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGAcgc > 1:391373/1‑70 (MQ=255)
tGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGAcgcg > 1:3019777/1‑70 (MQ=255)
ggCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCt < 1:2624640/63‑1 (MQ=255)
ggCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCt < 1:2727106/63‑1 (MQ=255)
gcgcAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGaa < 1:1405595/70‑1 (MQ=255)
gcAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCa < 1:3196656/71‑1 (MQ=255)
gcAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCa < 1:608918/71‑1 (MQ=255)
gcAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCa < 1:3710439/71‑1 (MQ=255)
cAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTc < 1:287903/58‑1 (MQ=255)
cAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTc < 1:1128979/58‑1 (MQ=255)
cAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCa > 1:2026914/1‑70 (MQ=255)
aaGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCAc > 1:3865094/2‑71 (MQ=255)
aGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCAcg > 1:2397915/1‑71 (MQ=255)
gTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTc > 1:2890750/1‑56 (MQ=255)
gTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCAcgc < 1:1496967/71‑1 (MQ=255)
cAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACg < 1:1345336/37‑1 (MQ=255)
aGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCt > 1:1326561/1‑51 (MQ=255)
aGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGAcgcg < 1:3119374/60‑1 (MQ=255)
aGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCa < 1:684867/71‑1 (MQ=255)
cTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGc < 1:1474711/71‑1 (MQ=255)
cTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAg < 1:2059933/70‑1 (MQ=255)
tAAGCCAGATAGTGCGTCGTATACAAGAATGATTGGGAGTGCGGCTTCTGACGCGAACCACGCGCAGCgt < 1:781861/70‑1 (MQ=255)
aGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCgttgt > 1:449351/1‑71 (MQ=255)
gCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGaa < 1:18025/54‑1 (MQ=255)
ccAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTc < 1:1587941/71‑1 (MQ=255)
aGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAAcc < 1:3332213/53‑1 (MQ=255)
gATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCaa > 1:2927930/1‑71 (MQ=255)
aTAGTGCTTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAAc > 1:3562004/1‑71 (MQ=255)
aTAGTGCGTCGTATAGAAGAACGATTGGGATTGCg > 1:285409/1‑35 (MQ=255)
gTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTcc < 1:2659712/65‑1 (MQ=255)
gTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGa < 1:3898898/71‑1 (MQ=255)
cgtcgtATAGAAGAATGATTGGGATTGCGGCTTCTGACGAGAACCACGCGCAGCGTTGTTCCAACTGAAGc > 1:1621949/1‑71 (MQ=255)
tcgtATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCgt < 1:52544/54‑1 (MQ=255)
cgtATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAg < 1:2795165/50‑1 (MQ=255)
taGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCa < 1:2770127/39‑1 (MQ=255)
taGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAg > 1:3746899/1‑71 (MQ=255)
taGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAg > 1:983499/1‑71 (MQ=255)
taGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAg > 1:479245/1‑71 (MQ=255)
agaagaACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGat > 1:2943199/1‑69 (MQ=255)
aagaaCGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCggg < 1:2825429/64‑1 (MQ=255)
aaCGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCtt < 1:3539737/71‑1 (MQ=255)
aCGATTGGTATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCttt < 1:3230373/71‑1 (MQ=255)
cGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCtttt < 1:145865/71‑1 (MQ=255)
cGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCtttt < 1:37722/71‑1 (MQ=255)
cGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCttt > 1:1016595/1‑70 (MQ=255)
|
ACTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCTTTT > minE/921994‑922133
|
| 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
