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 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,327,759 |
T→C |
43.8% |
R408R (CGT→CGC) |
atoC → |
fused response regulator of ato opeon, in two‑component system with AtoS |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,327,759 | 0 | T | C | 43.8%
| 6.7
/ 38.1
| 32 | R408R (CGT→CGC) | atoC | fused response regulator of ato opeon, in two‑component system with AtoS |
| Reads supporting (aligned to +/- strand): ref base T (7/11); new base C (4/10); total (11/21) |
| Fisher's exact test for biased strand distribution p-value = 7.12e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.53e-01 |
ACAGATTCGTCAGCCAGTCTGTAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGCATCATTATGGAAGTGCTGGAAC > W3110S.gb/2327699‑2327817
|
acaGATTCGTCAGCCAGTCTGTAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAag < 1:1250881/71‑1 (MQ=255)
acaGATTCGTCAGCCAGTCTGTAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAag < 1:635313/71‑1 (MQ=255)
acaGATTCGTCAGCCAGTCTGTAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAag < 1:1519103/71‑1 (MQ=255)
acaGATTCGTCAGCCAGTCTGTAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGCAATTTAAAag < 1:1394244/71‑1 (MQ=255)
acaGATTCGTCAGCCAGTCTGTAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGCAATTTAAAag < 1:573138/71‑1 (MQ=255)
acaGATTCGTCAGCCAGTCTGTAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGCAATTTAAAag < 1:421564/71‑1 (MQ=255)
acaGATTCGTCAGCCAGTCTGTAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGCAATTTAAAag < 1:3327315/71‑1 (MQ=255)
acaGATTCGTCAGCCAGTCTGTAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGCAATTTAAAag < 1:2719999/71‑1 (MQ=255)
acaGATTCGTCAGCCAGTCTGTAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGCAATTTAAAag < 1:1793319/71‑1 (MQ=255)
acaGATTCGTCAGCCAGTCTGTAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGCAATTTAAAag < 1:2045789/71‑1 (MQ=255)
tAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGaa > 1:1302710/1‑70 (MQ=255)
tAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGaa > 1:489326/1‑70 (MQ=255)
tAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGaa > 1:2343487/1‑70 (MQ=255)
tAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGCAATTTAAAAGAGGAAATTAAACGCGTCGaaa < 1:933939/71‑1 (MQ=255)
tAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGCAATTTAAAAGAGGAAATTAAACGCGTCGaaa < 1:1751657/71‑1 (MQ=255)
aTGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGCAATTTAAAagag > 1:1980675/1‑50 (MQ=255)
aTGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGCAATTTAAAagag > 1:347551/1‑50 (MQ=255)
aTGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGCAATTTAAAagag > 1:2854344/1‑50 (MQ=255)
aTGCTGGCGAGGTAAAAAAAGCCACTGTCGGTGAGCGCAATTTAAAagag > 1:3319725/1‑50 (MQ=255)
cTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGc < 1:1766578/71‑1 (MQ=255)
cTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGc < 1:1482665/71‑1 (MQ=255)
cTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGc < 1:3340588/71‑1 (MQ=255)
cTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGc < 1:1674109/71‑1 (MQ=255)
cTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGc < 1:3289583/71‑1 (MQ=255)
cTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGc < 1:264769/71‑1 (MQ=255)
tAAAAACAGCCCCTGTCGGTGAGCGCAATTTAAAag < 1:3337070/36‑1 (MQ=255)
aaaaCAGCCCCTGTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGCATCATTATGGa < 1:3232515/71‑1 (MQ=255)
aaaaCAGCCCCTGTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGCATCATTATGGa < 1:1310938/71‑1 (MQ=255)
gTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGCATCATTATGGAAGTGCTGGaac > 1:2616325/1‑70 (MQ=255)
gTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGCATCATTATGGAAGTGCTGGaac > 1:141201/1‑70 (MQ=255)
gTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGCATCATTATGGAAGTGCTGGaac > 1:1361423/1‑70 (MQ=255)
gTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGCATCATAATGGAAGTGCTGGaac > 1:1626565/1‑70 (MQ=255)
|
ACAGATTCGTCAGCCAGTCTGTAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGAGCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGCATCATTATGGAAGTGCTGGAAC > W3110S.gb/2327699‑2327817
|
| 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
