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 |
3,065,341 |
G→T |
38.7% |
I163I (ATC→ATA) |
ygfI ← |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,065,341 | 0 | G | T | 38.7%
| 95.8
/ 53.7
| 62 | I163I (ATC→ATA) | ygfI | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base G (21/17); new base T (15/9); total (36/26) |
| Fisher's exact test for biased strand distribution p-value = 6.08e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTCTTGCTCTTGTCGCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCTGTGGGGAGATAATAAAATCTAAC > W3110S.gb/3065272‑3065407
|
ctcttgctcttgTCGCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTGa < 1:3111293/71‑1 (MQ=255)
tgctcttgTCGCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTGATAGt > 1:1390218/1‑71 (MQ=255)
tgctcttgTCGCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTGATAGt > 1:4314267/1‑71 (MQ=255)
gctcttgTCGCTCTTCATAACGGCGATAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTTATAGt > 1:790438/1‑70 (MQ=255)
gctcttgTCGCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTtata < 1:1462132/68‑1 (MQ=255)
gctcttgTCGCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTTATAGt < 1:877697/70‑1 (MQ=255)
gctcttgTCGCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTTATAGt > 1:2007472/1‑70 (MQ=255)
gctcttgTCGCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTTATAGt > 1:4454670/1‑70 (MQ=255)
ttgTCGCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTTATAGTCAg < 1:2226425/69‑1 (MQ=255)
gTCGCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTTATAGTCAg > 1:3043329/1‑67 (MQ=255)
gTCGCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGttt > 1:2645369/1‑71 (MQ=255)
gCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTc > 1:4358246/1‑70 (MQ=255)
gCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTc < 1:3413053/70‑1 (MQ=255)
ttCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTCCAg < 1:615341/69‑1 (MQ=255)
tCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTTATAg < 1:617716/55‑1 (MQ=255)
tCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGtt > 1:4637804/1‑70 (MQ=255)
tCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTc > 1:3990896/1‑71 (MQ=255)
cATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTTATAg < 1:1675802/54‑1 (MQ=255)
cATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTTATAg < 1:1669902/54‑1 (MQ=255)
aaCGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTCCAGTTCCTg > 1:4204939/1‑70 (MQ=255)
aaCGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTCCAGTTCCTg > 1:3542750/1‑70 (MQ=255)
aCGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGaa > 1:251804/1‑71 (MQ=255)
aCGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGaa < 1:1110611/71‑1 (MQ=255)
cGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAAc < 1:4528322/71‑1 (MQ=255)
cgagaaacgagaaaGCCTAATCGCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTCCAGTTCCTGAACTCg < 1:4414084/71‑1 (MQ=255)
cgagaaacgagaaaGCCTAATCGCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTCCAGTTCCTGAACTCg < 1:810570/71‑1 (MQ=255)
gaaacgagaaaGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTg > 1:3566019/1‑70 (MQ=255)
aaacgagaaaGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCa < 1:3586965/71‑1 (MQ=255)
aaacgagaaaGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCa < 1:486921/71‑1 (MQ=255)
aaacgagaaaGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCa < 1:3209333/71‑1 (MQ=255)
aaacgagaaaGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCa < 1:2981661/71‑1 (MQ=255)
aacgagaaaGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAg < 1:2323667/71‑1 (MQ=255)
acgagaaaGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTg > 1:4165088/1‑67 (MQ=255)
cgagaaaGCCTAATCGCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGa > 1:1522040/1‑70 (MQ=255)
gagaaaGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTcc > 1:5002840/1‑49 (MQ=255)
gagaaaGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTcc > 1:387481/1‑49 (MQ=255)
gagaaaGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTcc > 1:2773998/1‑49 (MQ=255)
gagaaaGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATa > 1:2635893/1‑71 (MQ=255)
agaaaGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATa > 1:4668131/1‑70 (MQ=255)
gaaaGCCTAATCGCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACa > 1:1776160/1‑71 (MQ=255)
gCCTAATCTCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCt > 1:4631960/1‑71 (MQ=255)
ccTAATCGCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCtg > 1:2313324/1‑71 (MQ=255)
ccTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCtg < 1:4497840/71‑1 (MQ=255)
cTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCtgt > 1:2681399/1‑71 (MQ=255)
aaTCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGc > 1:4541392/1‑56 (MQ=255)
tCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCtgtg < 1:1070543/68‑1 (MQ=255)
gCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATg > 1:390043/1‑61 (MQ=255)
gCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATg > 1:2831926/1‑61 (MQ=255)
gCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCTGTggg > 1:1280783/1‑68 (MQ=255)
gCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCTGTggg > 1:675746/1‑68 (MQ=255)
gCAGCGGTGGTAGTTCACTTATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCTGTggg > 1:3747744/1‑68 (MQ=255)
gCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACa > 1:4026059/1‑59 (MQ=255)
gCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCa < 1:931000/50‑1 (MQ=255)
gtggtAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATa < 1:2763387/51‑1 (MQ=255)
gtggtAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATa < 1:5065338/51‑1 (MQ=255)
gtAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGa > 1:5033988/1‑46 (MQ=255)
gtAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCTGTGGGGAGATAATaaa < 1:3089536/70‑1 (MQ=255)
ttCACTTATAGTCAGGTTTTCCAGTTCCTTAACTCGTGCAGATACATGCTGTGGGGAGATAATaaa < 1:4516027/66‑1 (MQ=255)
cACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGa > 1:2484185/1‑40 (MQ=255)
cACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCTGTGGGGAGATAATAAAATCTAAc > 1:5007124/1‑71 (MQ=255)
cACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCTGTGGGGAGATAATAAAATCTAAc > 1:2354077/1‑71 (MQ=255)
aCTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCTGTGGGGAGATAATaaaa < 1:1733570/64‑1 (MQ=255)
aCTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCTGTGGGGAGATAATaaaa < 1:2849075/64‑1 (MQ=255)
gATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATa < 1:4944029/38‑1 (MQ=255)
gATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATa < 1:275600/38‑1 (MQ=255)
gATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATa < 1:3783261/38‑1 (MQ=255)
|
CTCTTGCTCTTGTCGCTCTTCATAACGGCGAGAAACGAGAAAGCCTAATCGCAGCGGTGGTAGTTCACTGATAGTCAGGTTTTCCAGTTCCTGAACTCGTGCAGATACATGCTGTGGGGAGATAATAAAATCTAAC > W3110S.gb/3065272‑3065407
|
| 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
