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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,068,568 |
T→A |
12.2% |
G22G (GGT→GGA) |
ymdF → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,068,568 | 0 | T | A | 12.2%
| 106.8
/ 8.0
| 41 | G22G (GGT→GGA) | ymdF | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (16/20); new base A (3/2); total (19/22) |
| Fisher's exact test for biased strand distribution p-value = 6.49e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
AATGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCATCTGAAG > W3110S.gb/1068502‑1068629
|
aaTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaaa > 1:2498663/1‑70 (MQ=255)
aaTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaaa > 1:3341909/1‑70 (MQ=255)
aaTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaaa > 1:1030075/1‑70 (MQ=255)
aTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaaaaa < 1:1036504/71‑1 (MQ=255)
aTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaaaaa < 1:3050033/71‑1 (MQ=255)
aTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaaaaa < 1:3659338/71‑1 (MQ=255)
aTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaaaa > 1:1381107/1‑70 (MQ=255)
aTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaaaa > 1:2992961/1‑70 (MQ=255)
aTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaaaa < 1:3596807/70‑1 (MQ=255)
aTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaaaa < 1:2014579/70‑1 (MQ=255)
aTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaaaa > 1:1861953/1‑70 (MQ=255)
aTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaaaa < 1:1726422/70‑1 (MQ=255)
aTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaaaa < 1:1487587/70‑1 (MQ=255)
aTGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACAGCGAAAGAGCATCAGAAGCAGGTaaaa > 1:2179232/1‑70 (MQ=255)
gCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAgg > 1:3098994/1‑71 (MQ=255)
gCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAgg > 1:1131980/1‑71 (MQ=255)
gCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAgg > 1:3640565/1‑71 (MQ=255)
gCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAgg > 1:1526603/1‑71 (MQ=255)
aaaCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTg < 1:1801674/71‑1 (MQ=255)
aaaCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTg < 1:2335236/71‑1 (MQ=255)
aaaCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTg < 1:320458/71‑1 (MQ=255)
aaaCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTg < 1:2950151/71‑1 (MQ=255)
aaaCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTg < 1:1119202/71‑1 (MQ=255)
aaaCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGAAAAAAAGGTg < 1:2989194/71‑1 (MQ=255)
aCCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTGGa < 1:1398417/71‑1 (MQ=255)
tCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTGGacag > 1:1114587/1‑70 (MQ=255)
tacGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAgg > 1:3382852/3‑53 (MQ=255)
tCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAgg > 1:3318549/1‑53 (MQ=255)
tCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAgg > 1:926850/1‑53 (MQ=255)
tCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTGGACAGCACAGCggggg > 1:1946820/1‑71 (MQ=255)
cGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTGGACAGCACAGCGGGGGt < 1:3063523/70‑1 (MQ=255)
aTTTTGCAGAAGACCGCGAAAGAGCATCAGAATCAGGTaa < 1:3587095/40‑1 (MQ=255)
aTTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTaa < 1:1706404/40‑1 (MQ=255)
tGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAg < 1:2600997/70‑1 (MQ=255)
agaagaCCGCGAAAGAGCATCAGAAGCAGCTAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATg < 1:3019230/71‑1 (MQ=255)
cgcgAAAGAGCATCAGAAGCAGGTAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGc < 1:2452195/70‑1 (MQ=255)
tCAGAAGCAGGTAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCATCTGa < 1:2818361/71‑1 (MQ=255)
aGAAGCAGGTAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCATCTGAAg > 1:2355498/1‑71 (MQ=255)
aGAAGCAGGTAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCATCTGAAg > 1:779405/1‑71 (MQ=255)
aGAAGCAGGTAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCATCTGAAg > 1:1128373/1‑71 (MQ=255)
gTAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAg < 1:2378598/38‑1 (MQ=255)
|
AATGGCAAACCATCGAGGCGGTTCCGGCAATTTTGCAGAAGACCGCGAAAGAGCATCAGAAGCAGGTAAAAAAGGTGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCATCTGAAG > W3110S.gb/1068502‑1068629
|
| 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
