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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
516,807 |
C→T |
9.8% |
E233K (GAA→AAA) |
ybbN ← |
predicted thioredoxin domain‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 516,807 | 0 | C | T | 9.8%
| 115.3
/ 3.8
| 41 | E233K (GAA→AAA) | ybbN | predicted thioredoxin domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base C (18/18); new base T (2/2); total (20/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.19e-01 |
TACGCGTCTGACCGTCTGCGGCGGTGAGATCTTTACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCATCTTCTGGATTCTCCGC > W3110S.gb/516738‑516876
|
tACGCGTCTGACCGTCTGCGGCGGTGAGATCTTTACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTc < 1:3301722/70‑1 (MQ=255)
tACGCGTCTGACCGTCTGCGGCGGTGAGATCTTTACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTc < 1:4237379/70‑1 (MQ=255)
gcgTCTGACCGTCTGCGGCGGTGAGATCTTTACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTCATTg < 1:3393829/71‑1 (MQ=255)
cgTCTGACCGTCTGCGGCGGTGAGATCTTTACTCAGATGCCCGAACAGCAACTCCAGCGCCTCTTCATTgc < 1:2153423/71‑1 (MQ=255)
cgTCTGACCGTCTGCGGCGGTGAGATCTTTACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTCATTgc < 1:1362491/71‑1 (MQ=255)
cgTCTGACCGTCTGCGGCGGTGAGATCTTTACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTCATTgc < 1:2069395/71‑1 (MQ=255)
gcggcgGTGAGATCTTTACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTCATTGCGCCCAACCTGATg > 1:3452081/1‑71 (MQ=255)
ggTGAGATCTTTACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGtt > 1:840644/1‑71 (MQ=255)
agaTCTTTACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTCATTGCGCCCAACCTGATGc < 1:1617240/63‑1 (MQ=255)
aTCTTTACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTCAt > 1:4405253/1‑44 (MQ=255)
cTTTACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAgcgc > 1:2707027/1‑70 (MQ=255)
tttACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTCATTGCGCCCAACCt < 1:3500116/53‑1 (MQ=255)
tACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAg < 1:3587370/70‑1 (MQ=255)
gATGCCCGAACAGCAACTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTc < 1:2338703/71‑1 (MQ=255)
aTGCCCGAACAGCAACTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAgcgc < 1:395246/60‑1 (MQ=255)
tGCCCGAACAGCAACTCCAGCGCCTCTTTATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGc > 1:672196/1‑71 (MQ=255)
tGCCCGAACAGCAACTCCAGCGCCTCTTTATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGc < 1:1177630/71‑1 (MQ=255)
tGCCCGAACAGCAACTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGc > 1:4127482/1‑71 (MQ=255)
cccGAACAGCAACTCCAGCGCCTCTTAATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGcc < 1:3777374/70‑1 (MQ=255)
gAACAGCAACTCCAGCGCCTCTTTATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGt > 1:253838/1‑58 (MQ=255)
gAACAGCAACTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGcc < 1:3528330/67‑1 (MQ=255)
aCAGCAACTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCg > 1:3432061/1‑71 (MQ=255)
aGCAACTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGc < 1:2620939/71‑1 (MQ=255)
aaCTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCAtc > 1:3153580/1‑71 (MQ=255)
cTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGt < 1:2716510/49‑1 (MQ=255)
cTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCa < 1:3768267/67‑1 (MQ=255)
cTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCAtc < 1:1966013/69‑1 (MQ=255)
ccAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGtt > 1:1564614/1‑48 (MQ=255)
ccAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCAtcttct > 1:3786693/1‑71 (MQ=255)
ccAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCAtcttct > 1:1215267/1‑71 (MQ=255)
ccAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCAtctt > 1:3345830/1‑69 (MQ=255)
ccAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCAtc > 1:870894/1‑67 (MQ=255)
ccAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCAtc > 1:3845161/1‑67 (MQ=255)
ccAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCAt > 1:606795/1‑66 (MQ=255)
ccAGCGCCACTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTg > 1:342875/1‑49 (MQ=255)
cAGCGCCTCTTTATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCATCTTCTg < 1:3557389/71‑1 (MQ=255)
aGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCATCTTCTgg < 1:4180978/71‑1 (MQ=255)
aGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCATCTTCTgg < 1:3412181/71‑1 (MQ=255)
ccTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCATCTTCTg < 1:3877994/66‑1 (MQ=255)
ctctTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCATCTTCTGGATtct > 1:1903028/1‑71 (MQ=255)
ctctTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCATCTTCTGGATtct > 1:1897665/1‑71 (MQ=255)
ctTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCg < 1:2835734/42‑1 (MQ=255)
tCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGt > 1:880212/1‑41 (MQ=255)
cATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGTGTCGCCAGTGCGGCATCTTCTGGATTCTCCGc > 1:1810134/1‑70 (MQ=255)
|
TACGCGTCTGACCGTCTGCGGCGGTGAGATCTTTACGCAGATGCCCGAACAGCAACTCCAGCGCCTCTTCATTGCGCCCAACCTGATGCAGTTGCAGCGCCAGTTGCGTCGCCAGTGCGGCATCTTCTGGATTCTCCGC > W3110S.gb/516738‑516876
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
