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 |
|
A6 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,367,537 |
C→T |
42.1% |
intergenic (‑85/‑105) |
pepQ ← / → fadB |
proline dipeptidase/fused 3‑hydroxybutyryl‑CoA epimerase/delta(3)‑cis‑delta(2)‑trans‑enoyl‑CoA isomerase/enoyl‑CoA hydratase and 3‑hydroxyacyl‑CoA dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,367,537 | 0 | C | T | 42.1%
| 26.8
/ 68.5
| 57 | intergenic (‑85/‑105) | pepQ/fadB | proline dipeptidase/fused 3‑hydroxybutyryl‑CoA epimerase/delta(3)‑cis‑delta(2)‑trans‑enoyl‑CoA isomerase/enoyl‑CoA hydratase and 3‑hydroxyacyl‑CoA dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base C (14/19); new base T (16/8); total (30/27) |
| Fisher's exact test for biased strand distribution p-value = 1.07e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.95e-01 |
TTTGACCTTAAGTCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCATCTGG > minE/2367471‑2367605
|
tttGACCTTAAGTCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAg < 1:1630908/69‑1 (MQ=255)
tAAGTCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCAttt > 1:1509256/1‑71 (MQ=255)
aGTCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCt < 1:2869113/71‑1 (MQ=255)
gTCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCtt < 1:1934330/71‑1 (MQ=255)
tctcCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCttt < 1:3408843/71‑1 (MQ=255)
cGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAAt < 1:3147531/70‑1 (MQ=255)
gCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCt > 1:1153358/1‑71 (MQ=255)
ttAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGTCATTTCTTTAATCtttt > 1:1787656/1‑69 (MQ=255)
ttAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCtttt > 1:411875/1‑69 (MQ=255)
ttAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCt > 1:2158012/1‑66 (MQ=255)
ttAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCt > 1:720704/1‑66 (MQ=255)
aGCACATCGTTCATCCAGAGGGTGATTTCTGCCGAGCGTGATCAGATCGGCAt < 1:1555531/53‑1 (MQ=255)
aGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCAt < 1:3261401/53‑1 (MQ=255)
aGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCAt < 1:3448063/53‑1 (MQ=255)
aGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTtttgt < 1:3091992/69‑1 (MQ=255)
aGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTtttgt < 1:1661034/69‑1 (MQ=255)
caTCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCttt < 1:2660/55‑1 (MQ=255)
aTCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCg < 1:2381800/44‑1 (MQ=255)
aTCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCg < 1:2259267/44‑1 (MQ=255)
aTCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCg < 1:458920/44‑1 (MQ=255)
tCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTtttgttt > 1:2305522/1‑65 (MQ=255)
tCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTtttgttt > 1:1451512/1‑65 (MQ=255)
ttCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCATAtttt < 1:1986811/71‑1 (MQ=255)
tCATCCAGAGCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATAtttt > 1:1464828/1‑70 (MQ=255)
tCATCCAGAGAGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCat > 1:1454836/1‑65 (MQ=255)
gagCGTGATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACaa < 1:2069181/71‑1 (MQ=255)
cGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACaaaa > 1:2980576/1‑70 (MQ=255)
gTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATa < 1:1907395/71‑1 (MQ=255)
gTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATa < 1:1698230/71‑1 (MQ=255)
gTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATa < 1:1682041/71‑1 (MQ=255)
gATTTCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATaca > 1:2407305/1‑71 (MQ=255)
gATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACaaa > 1:2685032/1‑66 (MQ=255)
aTTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCtt > 1:262226/1‑41 (MQ=255)
ttCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCat > 1:87565/1‑49 (MQ=255)
tCTGCCGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATacagac < 1:3040400/70‑1 (MQ=255)
ccGAGCGTGATTAGATCGGCATTTCTTTAATCTtttgtttg > 1:183865/1‑41 (MQ=255)
ccGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACtt < 1:998389/68‑1 (MQ=255)
ccGAGCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGa > 1:2236831/1‑71 (MQ=255)
cGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTaa > 1:949488/1‑51 (MQ=255)
cGAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTaa > 1:1322392/1‑51 (MQ=255)
gAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGAc > 1:3113855/1‑70 (MQ=255)
gAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACt > 1:3430043/1‑71 (MQ=255)
gAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACt > 1:961128/1‑71 (MQ=255)
gAGCGTGATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACt > 1:496643/1‑71 (MQ=255)
gCGTGATCAGATCGGCATTTCTTTAATCTtttgtttg > 1:3599461/1‑37 (MQ=255)
gCGTGATCAGATCGGCATTTCTTTAATCTtttgtttg > 1:1224096/1‑37 (MQ=255)
gCGTGATCAGATCGGCATTTCTTTAATCTtttgttt > 1:164664/1‑36 (MQ=255)
gCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCa < 1:3311538/71‑1 (MQ=255)
gCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCa < 1:3307186/71‑1 (MQ=255)
gATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCATCTg > 1:3335343/1‑71 (MQ=255)
gATTAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCATCTg > 1:2712308/1‑71 (MQ=255)
aTCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCATCTgg > 1:2874440/1‑71 (MQ=255)
aTCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCATCTgg > 1:1073861/1‑71 (MQ=255)
aTCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCATCTg < 1:3682802/70‑1 (MQ=255)
aTCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCATCTg < 1:1199817/70‑1 (MQ=255)
aTCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCATCTg < 1:2197024/70‑1 (MQ=255)
aTCAGATCGGCATTTCTTTAATCTTATGTTTGCATATTTTTAACACAAAATACACACTTCGACTCATCTg < 1:3277797/70‑1 (MQ=255)
|
TTTGACCTTAAGTCTCCGCATCTTAGCACATCGTTCATCCAGAGCGTGATTTCTGCCGAGCGTGATCAGATCGGCATTTCTTTAATCTTTTGTTTGCATATTTTTAACACAAAATACACACTTCGACTCATCTGG > minE/2367471‑2367605
|
| 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
