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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,420,852 |
A→T |
54.5% |
R79R (CGT→CGA) |
rffT ← |
TDP‑Fuc4NAc:lipidII transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,420,852 | 0 | A | T | 54.5%
| 4.7
/ 48.5
| 44 | R79R (CGT→CGA) | rffT | TDP‑Fuc4NAc:lipidII transferase |
| Reads supporting (aligned to +/- strand): ref base A (11/9); new base T (11/13); total (22/22) |
| Fisher's exact test for biased strand distribution p-value = 7.63e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.63e-01 |
TGGGCTTAATGCCACCACTCAGCAGAGCCAGCCACAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑CGCTGCTGACGGTTAGCTTTTGCTTTCGCGATGACCGCTTCCGCCAGCGATTTTTTCCCA > minE/2420785‑2420912
|
tggGCTTAATGCCACCACTCAGCAGAGCCAGCCACAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑c < 1:1067098/69‑1 (MQ=255)
tggGCTTAATGCCACCACTCAGCAGAGCCAGCCACAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑c < 1:2122997/69‑1 (MQ=255)
tggGCTTAATGCCACCACTCAGCAGAGCCAGCCACAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑c < 1:1136496/69‑1 (MQ=255)
tggGCTTAATGCCACCACTCAGCAGAGCCAGCCACAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑c < 1:1728389/69‑1 (MQ=255)
tggGCTTAATGCCACCACTCAGCAGAGCCAGCCACAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑c < 1:478020/69‑1 (MQ=255)
gggCTTAATGCCACCACTCAGCAGAGCCAGCCACAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑c < 1:154240/68‑1 (MQ=255)
tAATGCCACCACTCAGCAGAGCCAGCCACAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑Cgctgct < 1:1612380/69‑1 (MQ=255)
caccacTCAGCAGAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACg > 1:712307/1‑67 (MQ=255)
caccacTCAGCAGAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACg > 1:1511360/1‑67 (MQ=255)
caccacTCAGCAGAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACg > 1:152866/1‑67 (MQ=255)
caccacTCAGCAGAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACg > 1:1608112/1‑67 (MQ=255)
caccacTCAGCAGAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACg > 1:3228948/1‑67 (MQ=255)
caccacTCAGCAGAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACg > 1:166700/1‑67 (MQ=255)
caccacTCAGCAGAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACg > 1:2630389/1‑67 (MQ=255)
caccacTCAGCAGAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACg > 1:806730/1‑67 (MQ=255)
caccacTCAGCAGAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACg > 1:829179/1‑67 (MQ=255)
caccacTCAGCAGAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACg > 1:1877132/1‑67 (MQ=255)
caccacTCAGCAGAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACg > 1:1993513/1‑67 (MQ=255)
caccacTCAGCAGAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAATCGCTGCTGACg > 1:975028/1‑68 (MQ=255)
agcagAGCCAGCCACAGTTTTGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACgg < 1:1029834/60‑1 (MQ=255)
agcagAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACgg < 1:2073240/60‑1 (MQ=255)
agcagAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACgg < 1:1285890/60‑1 (MQ=255)
agcagAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACgg < 1:420154/60‑1 (MQ=255)
agcagAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACgg < 1:352843/60‑1 (MQ=255)
agcagAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACgg < 1:3253527/60‑1 (MQ=255)
agcagAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACgg < 1:3064301/60‑1 (MQ=255)
agcagAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACgg < 1:2995508/60‑1 (MQ=255)
agcagAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACgg < 1:2810000/60‑1 (MQ=255)
agcagAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACgg < 1:2697143/60‑1 (MQ=255)
agcagAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACgg < 1:1683996/60‑1 (MQ=255)
agcagAGCCAGCCACAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACgg < 1:2018374/60‑1 (MQ=255)
agcagAGCCAGCCACAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑CGCTGCTGACGGTTAGCtttt > 1:2299151/1‑69 (MQ=255)
agcagAGCCAGCCACAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑CGCTGCTGACGGTTAGCtttt > 1:493543/1‑69 (MQ=255)
agcagAGCCAGCCACAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑CGCTGCTGACGGTTAGCtttt > 1:1344158/1‑69 (MQ=255)
agccaCAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑CGCTGCTGACGGTTAGCTTTTGCTTTcgcg < 1:1395158/69‑1 (MQ=255)
agccaCAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑CGCTGCTGACGGTTAGCTTTTGCTTTcgcg < 1:833211/69‑1 (MQ=255)
ccaCAGTTTGGGATTGAACTGACCGTGGAAAAAAAAT‑CGCTGCTGACgg < 1:2506587/49‑1 (MQ=38)
gtgtGGGATTGAACTGACCGTGGAAGAAAAAA‑CGCTGCTGACGGTTAGCTTTTGCTTTCGCGATGACCg > 1:928875/1‑69 (MQ=255)
ttGAACTGACCGTGGAAGAAAAAA‑CGCTGCTGACGGTTAGCTTTTGCTTTCGCGATGACCGCTTCCGc > 1:1651355/1‑68 (MQ=255)
tGAACTGACCGTGGAAGAAAAAA‑CGCTGCTGACGGTTAGCTTTTGCTTTCGCGATGACCGCTTCCGCCa > 1:2565093/1‑69 (MQ=255)
tGAACTGACCGTGGAAGAAAAAA‑CGCTGCTGACGGTTAGCTTTTGCTTTCGCGATGACCGCTTCCGCCa > 1:1738152/1‑69 (MQ=255)
gACCGTGGAAGAAAAAA‑CGCTGCTGACGGTTAGCTTTTGCTTTCGCGATGACCGCTTCCGCCAGCGAtt > 1:2498870/1‑69 (MQ=255)
gACCGTGGAAGAAAAAA‑CGCTGCTGACGGTTAGCTTTTGCTTTCGCGATGACCGCTTCCGCCAGCGAtt > 1:1132094/1‑69 (MQ=255)
agaaAAAA‑CGCTGCTGACGGTTAGCTTTTGCTTTCGCGATGACCGCTTCCGCCAGCGATTTTTTCCCa > 1:353960/1‑68 (MQ=255)
|
TGGGCTTAATGCCACCACTCAGCAGAGCCAGCCACAGTGTGGGATTGAACTGACCGTGGAAGAAAAAA‑CGCTGCTGACGGTTAGCTTTTGCTTTCGCGATGACCGCTTCCGCCAGCGATTTTTTCCCA > minE/2420785‑2420912
|
| 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
