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 |
4,496,317 |
G→A |
44.4% |
G297G (GGC→GGT) |
idnT ← |
L‑idonate and D‑gluconate transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,496,317 | 0 | G | A | 44.4%
| 23.9
/ 80.2
| 63 | G297G (GGC→GGT) | idnT | L‑idonate and D‑gluconate transporter |
| Reads supporting (aligned to +/- strand): ref base G (17/18); new base A (16/12); total (33/30) |
| Fisher's exact test for biased strand distribution p-value = 6.13e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.63e-01 |
CACCGCTATCTACTAATACCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTCCATTACGTCGGCCCAGTG > W3110S.gb/4496247‑4496381
|
cacCGCTATCTACTAATACCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAgcg > 1:1416284/1‑71 (MQ=255)
tCTACTAATACCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAg < 1:1259373/70‑1 (MQ=255)
tCTACTAATACCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCACCtata < 1:1584472/69‑1 (MQ=255)
ctactaATACCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGaa > 1:3172690/1‑71 (MQ=255)
actaATACCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGaa > 1:1688009/1‑69 (MQ=255)
ctaATACCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGa < 1:4124198/67‑1 (MQ=255)
ctaATACCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATcc > 1:806745/1‑71 (MQ=255)
aaTACCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATccc > 1:2526567/1‑70 (MQ=255)
aTACCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCTATAGCGCCTATAGAATcccc < 1:4472233/70‑1 (MQ=255)
aTACCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATcccc > 1:467950/1‑70 (MQ=255)
aTACCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCACCTATAGAATcccc < 1:531045/70‑1 (MQ=255)
aCCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAAt > 1:3071412/1‑71 (MQ=255)
ccTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAAt > 1:3837215/1‑70 (MQ=255)
ccTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCACCTATAGAATCCCCAATg < 1:1341204/71‑1 (MQ=255)
aaaCGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCtata < 1:3588224/52‑1 (MQ=255)
aaaCGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCa > 1:3415400/1‑71 (MQ=255)
aaaCGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCACCTATAg > 1:2420011/1‑53 (MQ=255)
aaaCGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCACCTATAg > 1:3155355/1‑53 (MQ=255)
aaCGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCACCTATAGAATCCCCAATGATATCCAt > 1:761045/1‑71 (MQ=255)
aaCGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCACCTATAGAATCCCCAATGATATCCAt > 1:2821660/1‑71 (MQ=255)
aCGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATg < 1:4326505/71‑1 (MQ=255)
cgcgCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGa < 1:3907178/71‑1 (MQ=255)
gcgcCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGa < 1:3901374/70‑1 (MQ=255)
ccgccgccAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGAttt < 1:1082472/70‑1 (MQ=255)
ccgccgccAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGAttt < 1:2692868/70‑1 (MQ=255)
ccgccgccAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGATTTg < 1:4053977/71‑1 (MQ=255)
gccgccAGCGATAATAAACACAATCATCGCGATAGCGCCTATAg > 1:1190750/1‑44 (MQ=255)
gccAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGATTTGCTCGa < 1:408379/71‑1 (MQ=255)
cGATAATAAACTCAATCATCGCGATAGCGCCTATAGaa < 1:2702192/38‑1 (MQ=255)
gATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGa > 1:4710849/1‑56 (MQ=255)
gATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGa > 1:762107/1‑56 (MQ=255)
gATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGa > 1:201025/1‑56 (MQ=255)
gATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGAtt < 1:410545/58‑1 (MQ=255)
gATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGAtt < 1:501581/58‑1 (MQ=255)
taataaACACAATCATCGCGATAGCACCTATAGAATCCCCAATGATATCCATGAtt < 1:4427310/56‑1 (MQ=255)
taataaACACAATCATCGCGATAGCACCTATAGAATCCCCAATGATATCCATGAtt < 1:276567/56‑1 (MQ=255)
aataaACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGATTTGCTCGAt > 1:4779529/1‑63 (MQ=255)
ataaACACAATCATCGCGATAGCACCTATAGAATCCCCAATGATATCCATGATTTg > 1:1177966/1‑56 (MQ=255)
aaaCACAATCATCGCGATAGCACCTATAGAATCCCCAATGATATCCATGATTTGCTCGAt > 1:3883414/1‑60 (MQ=255)
aaaCACAATCATCGCGATAGCACCTATAGAATCCCCAATGATATCCATGATTTGCTCGAt > 1:1801532/1‑60 (MQ=255)
aaaCACAATCATCGCGATAGCACCTATAGAATCCCCAATGATATCCATGATTTGCTCGAt > 1:1109896/1‑60 (MQ=255)
acacAATCATCGCGATAGCACCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTCCATTa < 1:4777175/71‑1 (MQ=255)
acacAATCATCGCGATAGCACCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTCCATTa < 1:2249191/71‑1 (MQ=255)
acacAATCATCGCGATAGCACCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTCCATTa < 1:2396069/71‑1 (MQ=255)
cacaATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTCCATTAc > 1:765213/1‑71 (MQ=255)
cacaATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTCCATTAc > 1:1075894/1‑71 (MQ=255)
cacaATCATCGCGATAGCACCTATAGAATCCCCAATGATATCCAt > 1:560762/1‑45 (MQ=255)
cacaATCATCGCGATAGCACCTATAGAATCCCCAATGATATCCAt > 1:252267/1‑45 (MQ=255)
caATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTCCATTACGt < 1:2067052/71‑1 (MQ=255)
tcatcGCGATAGCACCTATAGAATCCCCAATGATATCCATGATTTGCTCGAt < 1:4760783/52‑1 (MQ=255)
catcGCGATAGCACCTATAGAATCCCCAATGATATCCATGATTTGc > 1:4867529/1‑46 (MQ=255)
catcGCGATAGCACCTATAGAATCCCCAATGATATCCATGATTTGc > 1:3196473/1‑46 (MQ=255)
catcGCGATAGCACCTATAGAATCCCCAATGATATCCATGATTTGCTCTAt < 1:3799585/51‑1 (MQ=255)
atcGCGATAGCACCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTCCATTACGTCg > 1:316805/1‑68 (MQ=255)
atcGCGATAGCACCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTCCATTACGTCg > 1:5062159/1‑68 (MQ=255)
tcGCGATAGCGCCTATAGAATCCCCAATGATATCCATGATTTGCTc < 1:1775721/46‑1 (MQ=255)
tcGCGATAGCGCCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTcc < 1:4347108/58‑1 (MQ=255)
tcGCGATAGCGCCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTcc < 1:1707825/58‑1 (MQ=255)
gcgATAGCACCTATAGAACCCCCAATGATATCCATGATTTGCTCGATGGTGCGTCCATTACGTCGGCCCa < 1:393744/70‑1 (MQ=255)
cgATAGCACCTATAGAATCCCCAATGATATCCATGATTTGCTCGAt < 1:3927853/46‑1 (MQ=255)
gATAGCGCCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTCCATTACGTCGGCCCAgtg > 1:4789392/1‑71 (MQ=255)
gATAGCGCCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTCCATTACGTCGGCCCAgt > 1:1568155/1‑70 (MQ=255)
aGCACCTATAGAATCCCCAATGATATCCATGATTTGCTCGATgg > 1:3612968/1‑44 (MQ=255)
aGCACCTATAGAATCCCCAATGATATCCATGATTTGCTCGATgg > 1:4901461/1‑44 (MQ=255)
|
CACCGCTATCTACTAATACCTGCTTAAACGCGCCGCCGCCAGCGATAATAAACACAATCATCGCGATAGCGCCTATAGAATCCCCAATGATATCCATGATTTGCTCGATGGTGCGTCCATTACGTCGGCCCAGTG > W3110S.gb/4496247‑4496381
|
| 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
