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 |
4,407,692 |
C→T |
46.3% |
R325C (CGT→TGT) |
hflK → |
modulator for HflB protease specific for phage lambda cII repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,407,692 | 0 | C | T | 46.3%
| 8.4
/ 54.3
| 41 | R325C (CGT→TGT) | hflK | modulator for HflB protease specific for phage lambda cII repressor |
| Reads supporting (aligned to +/- strand): ref base C (12/10); new base T (9/10); total (21/20) |
| Fisher's exact test for biased strand distribution p-value = 7.58e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTGAAGTGGCGCGCTTTGCTAAACTTCTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAACACCCGCAAAGTGCTGGTTAACGATAAAGG > W3110S.gb/4407627‑4407759
|
gTGAAGTGGCGCGCTTTGCTAAACTTCTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGTGTCTg < 1:4491359/71‑1 (MQ=255)
gTGAAGTGGCGCGCTTTGCTAAACTTCTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGTGTCTg < 1:4616422/71‑1 (MQ=255)
aaGTGGCGCGCTTTGCTAAACTTCTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGTGTCTGta > 1:4916694/1‑70 (MQ=255)
tGGCGCGCTTTGCTAAACTTCTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGTGTCTGTATATc < 1:1985262/71‑1 (MQ=255)
ggCGCGCTTTGCTAAACTTCTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGTGTCt < 1:4220870/63‑1 (MQ=255)
ggCGCGCTTTGCTAAACTTCTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGCGTCTGTATATc > 1:367083/1‑70 (MQ=255)
tGCTAAACTTCTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGTGTCTGTATATCGAGACGATg > 1:2376696/1‑70 (MQ=255)
tGCTAAACTTCTGCCGAAATATAAAGCCGCGCCGGAAATTACTCGCGAGCGTCTGTATATCGAGACGATg > 1:2355452/1‑70 (MQ=255)
gCTAAACTTCTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGCGTCTGTATATCGAGACGATgg > 1:2582902/1‑70 (MQ=255)
aCTTCTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGTGTCTGTATATCGAGACGATGGaaaa < 1:4197954/69‑1 (MQ=255)
aCTTCTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGTGTCTGTATATCGAGACGATGGAAAAAg < 1:581620/71‑1 (MQ=255)
tCTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGCGTCTGtat < 1:1858003/49‑1 (MQ=255)
cTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGCGt > 1:2302756/1‑42 (MQ=255)
cTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGCGTCTGTATATCGAGACGa > 1:1577737/1‑58 (MQ=255)
cTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAgtg < 1:4967455/69‑1 (MQ=255)
gAATATAAAGCCGCGCCTGAAATTACTCGCGAGTGTCTGTATATCGAGACGATGGaaaa < 1:459966/59‑1 (MQ=255)
gAATATAAAGCCGCGCCGGAAATTACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTaa > 1:2012168/1‑71 (MQ=255)
atatAAAGCCGCGCCGGAAATTACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAaca < 1:4168900/71‑1 (MQ=255)
tataAAGCCGCGCCGGAAATTACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAacac < 1:459528/71‑1 (MQ=255)
taAAGCCGCGCCGGAAATTACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAACAccc > 1:1117897/1‑71 (MQ=255)
aaGCCGCGCCGGAAATTACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGtt > 1:3334778/1‑58 (MQ=255)
aGCCGCGCCGGAAATTACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAACACCCGc > 1:357152/1‑70 (MQ=255)
ccGCGCCGGAAATTACTCGCGAGCGTCTGTATATCGAGACGAt > 1:1663465/1‑43 (MQ=255)
cGGAAATTACTCGCGAGTGTCTGTATATCGAGACGATGGAAAAAGTGTT‑GGTAACACCCGCaa < 1:4461363/63‑1 (MQ=255)
gAAATTACTCGCGAGTGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAACACCCGCAAAg > 1:2383698/1‑64 (MQ=255)
gAAATTACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGtt < 1:5071264/47‑1 (MQ=255)
ttACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAg < 1:66334/39‑1 (MQ=255)
ttACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTaa < 1:3146983/49‑1 (MQ=255)
ttACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTaa < 1:4866725/49‑1 (MQ=255)
ttACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAACACCCGCAAAGTGCTGGTTAAc < 1:5033972/71‑1 (MQ=255)
tACTCGCGAGTGTCTGTATATCGAGACGATGGaaaa > 1:4973204/1‑36 (MQ=255)
tACTCGCGAGTGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAacacac > 1:1078029/1‑51 (MQ=255)
tACTCGCGAGTGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAACACCCGCAAAGTGCTGGTTAAc > 1:4288539/1‑70 (MQ=255)
tACTCGCGAGTGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAACACCCGCAAAGTGCTGGTTAAc > 1:2580325/1‑70 (MQ=255)
tACTCGCGAGTGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAACACCCGCAAAGTGCTGGTTAAc > 1:2505062/1‑70 (MQ=255)
tACTCGCGAGTGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAACACCCGCAAAGTGCTGGTTAAc > 1:1153786/1‑70 (MQ=255)
tACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAACACCCGCAAAGTGCTgg > 1:272634/1‑65 (MQ=255)
aCTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAaca > 1:3017625/1‑49 (MQ=255)
gAGTGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAACACCCGCAAAGTGCTGGTTAACGATAAAgg < 1:2458194/71‑1 (MQ=255)
gAGTGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAACACCCGCAAAGTGCTGGTTAACGATAAAgg < 1:2452348/71‑1 (MQ=255)
aGCGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGt < 1:3211839/38‑1 (MQ=255)
|
GTGAAGTGGCGCGCTTTGCTAAACTTCTGCCGGAATATAAAGCCGCGCCGGAAATTACTCGCGAGCGTCTGTATATCGAGACGATGGAAAAAGTGTTGGGTAACACCCGCAAAGTGCTGGTTAACGATAAAGG > W3110S.gb/4407627‑4407759
|
| 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
