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 |
3,375,433 |
A→G |
30.2% |
D237G (GAT→GGT) |
dcuD → |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,375,433 | 0 | A | G | 30.2%
| 84.6
/ 53.0
| 63 | D237G (GAT→GGT) | dcuD | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base A (19/25); new base G (11/8); total (30/33) |
| Fisher's exact test for biased strand distribution p-value = 4.10e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
GTGCAACGCGCTTTTGACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATGCTCGGCTCGCTGTTC > W3110S.gb/3375366‑3375503
|
gTGCAACGCGCTTTTGACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATa < 1:4374672/70‑1 (MQ=255)
gTGCAACGCGCTTTTGACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATa < 1:2964646/70‑1 (MQ=255)
gCAACGCGCTTTTGACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGGTAATg > 1:3888497/1‑71 (MQ=255)
cAACGCGCTTTTGACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGGTAATGt > 1:122635/1‑71 (MQ=255)
gcgcTTTTGACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGGTAATGTCccg > 1:2763013/1‑71 (MQ=255)
tttGACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGGTAATGTCCCGCCGct > 1:2318998/1‑71 (MQ=255)
tttGACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATaa < 1:1806704/59‑1 (MQ=255)
tttGACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATaa < 1:2411552/59‑1 (MQ=255)
tGACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGctc < 1:2662332/70‑1 (MQ=255)
tGACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGctc < 1:3510279/70‑1 (MQ=255)
gACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGGTAATGTCCCGCCGctct < 1:1373639/70‑1 (MQ=255)
gACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGCTCTa > 1:4667394/1‑71 (MQ=255)
aCAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGCTCTAt < 1:2931568/71‑1 (MQ=255)
aaaaaaGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATAAt > 1:1684109/1‑54 (MQ=255)
aaaGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGGTAATGTCCCGCCGCTCTATTACGc > 1:654485/1‑71 (MQ=255)
aaaGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGGTAATGTCCCGCCGCTCTAATACGc > 1:417564/1‑71 (MQ=255)
aaGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGCTCTATTACGcc < 1:1399226/71‑1 (MQ=255)
aGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGGTAATGTCCCGCCGCTCTATTACGCCa < 1:1297317/71‑1 (MQ=255)
aGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGGTAATGTCCCGCCGCTCTATTACGCCa < 1:5121554/71‑1 (MQ=255)
aGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGCTCTATTACGCCa > 1:1863888/1‑71 (MQ=255)
aGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGCTCTATTACGCCa > 1:712757/1‑71 (MQ=255)
gATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGGTAATGTCCCGCCGCTCTATTACGCCAt < 1:4908609/71‑1 (MQ=255)
gATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCccgc > 1:1845516/1‑55 (MQ=255)
tAAAAATATCAATCACGAACAGGCAGAGCAAAACGCTCTCGATAATGTCCCGCCGCTCTATTACGCCAttt > 1:3283646/1‑71 (MQ=255)
aaaaTATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGGTa < 1:4175590/42‑1 (MQ=255)
aaaaTATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGGTa < 1:5129943/42‑1 (MQ=255)
tatCAATCACGAACAGGCAGAGCAAAAAGCTCTCGGTAATGTCCCGCCGctc < 1:5038946/52‑1 (MQ=255)
caatcaCGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCACGCCGCTCTATTACGCCATTTTACCTGTGa > 1:4962070/1‑71 (MQ=255)
atcaCGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATg < 1:2687800/71‑1 (MQ=255)
tcaCGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGctct < 1:642192/47‑1 (MQ=255)
aCGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGCTCTATTACGCCAtt > 1:1657923/1‑56 (MQ=255)
aCGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCg > 1:641502/1‑71 (MQ=255)
aCGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCg > 1:2137050/1‑71 (MQ=255)
aGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATc > 1:1464616/1‑71 (MQ=255)
agagCAAAAAGCTCTCGGTAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGa < 1:1933898/71‑1 (MQ=255)
cAAAAAGCTCTCGGTAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATgct > 1:3896359/1‑71 (MQ=255)
cAAAAAGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATgct < 1:3042368/71‑1 (MQ=255)
aaaaaGCTCTCGGTAATGTCCCGCCGCTCTATTACGCCATTTTAc > 1:1305759/1‑45 (MQ=255)
aaaaGCTCTCGGTAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATgctcg > 1:1792984/1‑71 (MQ=255)
aaaaGCTCTCGATAATGTCCCGCCGCTCTATTACGCCAtttt < 1:3774727/42‑1 (MQ=255)
aaaaGCTCTCGATAATGTCCCGCCGCTCTATTACGCCAtttt < 1:806232/42‑1 (MQ=255)
aaaaGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATgctcg < 1:1157571/71‑1 (MQ=255)
aaaaGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATgctcg > 1:3326921/1‑71 (MQ=255)
aaaGCTCTCGGTAATGTCCCGCCGCTCTATTACGCCATTTTACCtg > 1:3440307/1‑46 (MQ=255)
aaaGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATcc < 1:3133302/61‑1 (MQ=255)
aaaGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATgc < 1:2738429/67‑1 (MQ=255)
aaGCTCTCGGTAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGa > 1:5142578/1‑63 (MQ=255)
aGCTCTCGATAATGTCCCGCCGCTCTATTACTCCATTTTAc > 1:1436819/1‑41 (MQ=255)
aGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTAc > 1:408999/1‑41 (MQ=255)
aGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTAc > 1:2371317/1‑41 (MQ=255)
aGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTAc > 1:2507334/1‑41 (MQ=255)
aGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATgctc > 1:4837081/1‑67 (MQ=255)
ctctCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGtt < 1:1009535/52‑1 (MQ=255)
ctctCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGtt < 1:3366369/52‑1 (MQ=255)
ctctCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGtt < 1:4359920/52‑1 (MQ=255)
tcGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATgctcgcc < 1:3241699/65‑3 (MQ=255)
cGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATGCTCGGCTCGCTGt > 1:3150674/1‑71 (MQ=255)
gATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGtt < 1:4413723/47‑1 (MQ=255)
gATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGtt < 1:1455873/47‑1 (MQ=255)
gATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGtt > 1:4131943/1‑47 (MQ=255)
gATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGtt < 1:4059435/47‑1 (MQ=255)
gATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATGCTCGGCTCGCTGt < 1:5086156/70‑1 (MQ=255)
gATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATGCTCGGCTCGCTGt < 1:3607723/70‑1 (MQ=255)
aTAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATGCTCGGCTCGCTGTTc < 1:2014035/71‑1 (MQ=255)
|
GTGCAACGCGCTTTTGACAAAAAAGATAAAAATATCAATCACGAACAGGCAGAGCAAAAAGCTCTCGATAATGTCCCGCCGCTCTATTACGCCATTTTACCTGTGATGCCGTTAATCCTGATGCTCGGCTCGCTGTTC > W3110S.gb/3375366‑3375503
|
| 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
