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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,989,743 |
(G)7→6 |
intergenic (‑617/+12) |
yhiS ← / ← arsC |
hypothetical protein/arsenate reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,989,737 | 0 | G | . | 81.8%
| 47.2
/ 14.0
| 22 | intergenic (‑611/+18) | yhiS/arsC | hypothetical protein/arsenate reductase |
| Reads supporting (aligned to +/- strand): ref base G (3/1); new base . (5/13); total (8/14) |
| Fisher's exact test for biased strand distribution p-value = 1.17e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGTCGGATAAGACGCGCCAGCGTCGCATCCGACATAAATAAAGCGCACTTTTCTAACAACCTGTGGGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGCTTCATCAACCACTTTCTCGCCATCTTC > W3110S.gb/3989673‑3989802
|
ggTCGGATAAGACGCGCCAGCGTCGCATCCGACATAAATAAAGCGCACTTTTCTAACAACCTGTgggggga > 1:2745512/1‑70 (MQ=255)
tCGGATAAGACGCGCCAGCGTCGCATCCGACATAAATAAAGCGCACTTTTCTAACAACCTGTggggggat < 1:1860328/70‑3 (MQ=255)
cGGATAAGACGCGCCAGCGTCGCATCCGACATAAATAAAGCGCACTTTTCTAACAACCTGTGGGGGGGata > 1:4077969/1‑71 (MQ=255)
cGGATAAGACGCGCCAGCGTCGCATCCGACATAAATAAAGCGCACTTTTCTAACAACCTGTGGGGGGGata > 1:1389939/1‑71 (MQ=255)
cGGATAAGACGCGCCAGCGTCGCATCCGACATAAATAAAGCGCACTTTTCTAACAACCTGTGGGGGGGata > 1:3058315/1‑71 (MQ=255)
gcgcCAGCGTCGCATCCGACATAAATAAAGCGCACTTTTCTAACAACCTGTGGGGGGGATATCGCCGCtt < 1:1788310/70‑1 (MQ=255)
gcgcCAGCGTCGCATCCGACATAAATAAAGCGCACTTTTCTAACAACCTGT‑GGGGGGATATCGCCGCTTTa < 1:2482940/71‑1 (MQ=255)
aTCCGACATAAATAAAGCGCACTTTTCTAACAACCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTa > 1:890559/1‑71 (MQ=255)
aTCCGACATAAATAAAGCGCACTTTTCTAACAACCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTa > 1:1437080/1‑71 (MQ=255)
aCATAAATAAAGCGCACTTTTCTAACAACCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGc < 1:251991/71‑1 (MQ=255)
aCATAAATAAAGCGCACTTTTCTAACAACCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGc < 1:3218420/71‑1 (MQ=255)
aCATAAATAAAGCGCACTTTTCTAACAACCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGc < 1:3005152/71‑1 (MQ=255)
aCATAAATAAAGCGCACTTTTCTAACAACCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGc < 1:2797247/71‑1 (MQ=255)
aCATAAATAAAGCGCACTTTTCTAACAACCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGc < 1:1121186/71‑1 (MQ=255)
ataaataaAGCGCACTTTTCTAACAACCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGCtt < 1:2946369/71‑1 (MQ=255)
ataaaGCGCACTTTTCTAACAACCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGc < 1:4077553/65‑1 (MQ=255)
tAACAACCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGCTTCATCAACCACTTtctc < 1:584504/67‑1 (MQ=255)
tAACAACCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGCTTCATCAACCACTTtctc < 1:1285429/67‑1 (MQ=255)
acaacCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGCTTCATCAACCACTTtctc < 1:2451526/65‑1 (MQ=255)
acaacCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGCTTCATCAACCACTTTCTCGc > 1:1317548/1‑67 (MQ=255)
acaacCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGCTTCATCAACCACTTTCTCGCCa < 1:1767683/69‑1 (MQ=255)
acaacCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGCTTCATCAACCACTTTCTCGCCa < 1:1539704/69‑1 (MQ=255)
acCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGCTTCATCAACCACTTTCTCGCCATCTTc > 1:2394646/1‑71 (MQ=255)
acCTGT‑GGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGCTTCATCAACCACTTTCTCGCCATCTTc > 1:46749/1‑71 (MQ=255)
|
GGTCGGATAAGACGCGCCAGCGTCGCATCCGACATAAATAAAGCGCACTTTTCTAACAACCTGTGGGGGGGATATCGCCGCTTTATTTCAGGCGCTTACCCGCTTCATCAACCACTTTCTCGCCATCTTC > W3110S.gb/3989673‑3989802
|
| 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
