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 |
2,035,876 |
(T)8→9 |
intergenic (‑255/‑312) |
yedR ← / → yedS |
predicted inner membrane protein/ECK1962:JW5319:b1964; hypothetical protein, N‑ter fragment |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,035,868 | 1 | . | T | 95.0%
| 51.5
/ ‑2.7
| 20 | intergenic (‑247/‑320) | yedR/yedS | predicted inner membrane protein/ECK1962:JW5319:b1964; hypothetical protein, N‑ter fragment |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base T (5/14); total (5/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.73e-01 |
TGTCATGATGCTTCCGTTATTAGCCTTTTATCGTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGC‑TTTTTTTTATGCCTTCATTAATGTGCGCCTGATCACACCAGCCGTTTGGCGCAACAATCATT > W3110S.gb/2035800‑2035930
|
tgtCATGATGCTTCCGTTATTAGCCTTTTATCCTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGC‑tt > 1:651591/1‑71 (MQ=255)
atgCTTCCGTTATTAGCCTTTTATCGTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGC‑tttttttt > 1:1014775/1‑70 (MQ=255)
atgCTTCCGTTATTAGCCTTTTATCGTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGC‑tttttttt > 1:2520838/1‑70 (MQ=255)
gCTTCCGTTATTAGCCTTTTATCGTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGC‑ttttttttta > 1:606110/1‑68 (MQ=255)
tCCGTTATTAGCCTTTTATCGTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGCTTTTTTTTTATGcc > 1:463024/1‑71 (MQ=255)
tCCGTTATTAGCCTTTTATCGTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGCTTTTTTTTTATGcc > 1:3334020/1‑71 (MQ=255)
cGTTATTAGCCTTTTATCGTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGCTTTTTTTTTATGCCtt < 1:166727/71‑1 (MQ=255)
cGTTATTAGCCTTTTATCGTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGCTTTTTTTTTATGCCtt < 1:2129012/71‑1 (MQ=255)
cGTTATTAGCCTTTTATCGTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGCTTTTTTTTTATGCCtt < 1:2761422/71‑1 (MQ=255)
cGTTATTAGCCTTTTATCGTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGCTTTTTTTTTATGCCtt < 1:300031/71‑1 (MQ=255)
aGCCTTTTATCGTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGCTTTTTTTTTATGCCTTCATTaa < 1:1235954/70‑1 (MQ=255)
aGCCTTTTATCGTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGCTTTTTTTTTATGCCTTCATTaa < 1:3880495/70‑1 (MQ=255)
gTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGCTTTTTTTTTATGCCTTCATTAATGTGCGCCTGAt < 1:2425381/71‑1 (MQ=255)
gTTTATATTTTTTGGGCCGGCATGATGCCGGCTTTTTTTTTATGCCTTCATTAATGTGCGCCTGATca < 1:1802931/68‑1 (MQ=255)
tataTTTTTTGGGCCGGCATGATGCCGGCTTTTTTTTTATGCCTTCATTAATGTGCGCCTGATCACACCAg > 1:2901009/1‑71 (MQ=255)
tataTTTTTTGGGCCGGCATGATGCCGGCTTTTTTTTTATGCCTTCATTAATGTGCGCCTGATCACACCAg > 1:3269929/1‑71 (MQ=255)
tataTTTTTTGGGCCGGCATGATGCCGGCTTTTTTTTTATGCCTTCATTAATGTGCGCCTGATCACACCAg > 1:3516474/1‑71 (MQ=255)
atgCCGGCTTTTTTTTTATGCCTTCATTAATGTGCGCCTGATCACACCAGCCGTTTGGCGCAACAATCAtt < 1:255201/71‑1 (MQ=255)
atgCCGGCTTTTTTTTTATGCCTTCATTAATGTGCGCCTGATCACACCAGCCGTTTGGCGCAACAATCAtt < 1:2351046/71‑1 (MQ=255)
atgCCGGCTTTTTTTTTATGCCTTCATTAATGTGCGCCTGATCACACCAGCCGTTTGGCGCAACAATCAtt < 1:2345328/71‑1 (MQ=255)
atgCCGGCTTTTTTTTTATGCCTTCATTAATGTGCGCCTGATCACACCAGCCGTTTGGCGCAACAATCAtt < 1:793290/71‑1 (MQ=255)
atgCCGGCTTTTTTTTTATGCCTTCATTAATGTGCGCCTGATCACACCAGCCGTTTGGCGCAACAATCAtt < 1:875656/71‑1 (MQ=255)
atgCCGGCTTTTTTTTTATGCCTTCATTAATGTGCGCCTGATCACACCAGCCGTTTGGCGCAACAATCAtt < 1:9076/71‑1 (MQ=255)
atgCCGGC‑TTTTTTTTATGCCTTCATTAATGTGCGCCTGATCACACCAGCCGTTTGGCGCAACAATCAtt < 1:3658269/70‑1 (MQ=255)
|
TGTCATGATGCTTCCGTTATTAGCCTTTTATCGTCTTGTTTATATTTTTTGGGCCGGCATGATGCCGGC‑TTTTTTTTATGCCTTCATTAATGTGCGCCTGATCACACCAGCCGTTTGGCGCAACAATCATT > W3110S.gb/2035800‑2035930
|
| 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
