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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,671,661 |
G→A |
15.9% |
R204Q (CGG→CAG) |
rhlB → |
ATP‑dependent RNA helicase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,671,661 | 0 | G | A | 15.9%
| 109.6
/ 12.8
| 44 | R204Q (CGG→CAG) | rhlB | ATP‑dependent RNA helicase |
| Reads supporting (aligned to +/- strand): ref base G (17/20); new base A (2/5); total (19/25) |
| Fisher's exact test for biased strand distribution p-value = 6.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.26e-01 |
GGCTGTTCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGAACAGAA > W3110S.gb/3671592‑3671727
|
ggctgTTCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCgg > 1:1388745/1‑71 (MQ=255)
gctgTTCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCggg > 1:2351917/1‑71 (MQ=255)
gctgTTCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCggg < 1:1640735/71‑1 (MQ=255)
ttCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTa < 1:1270166/69‑1 (MQ=255)
ttCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTa < 1:1339983/69‑1 (MQ=255)
ccgccgTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGt > 1:700711/1‑70 (MQ=255)
ccgccgTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGt > 1:668663/1‑70 (MQ=255)
cgccgTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGTGTACGTGa < 1:2365284/71‑1 (MQ=255)
cgccgTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGa < 1:1974246/71‑1 (MQ=255)
cgccgTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTg < 1:422140/70‑1 (MQ=255)
ccgccTGCAAACGAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCgg > 1:2360981/1‑54 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAg > 1:38903/1‑68 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAg > 1:2366249/1‑68 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAg > 1:523019/1‑68 (MQ=255)
cAAACCAGCGCCTCAACATGCAGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAg > 1:579970/1‑68 (MQ=255)
aCCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGa < 1:2414010/52‑1 (MQ=255)
aCCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGa < 1:1102735/52‑1 (MQ=255)
aGCGCCTCAACATGCTGTTCTCCTCCACGCTTTCGTACCGGGTACGTGAACTGTCGTTCGAGCAGATGAAc < 1:298752/71‑1 (MQ=255)
aGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGaa > 1:132113/1‑70 (MQ=255)
aGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAAc < 1:1259138/71‑1 (MQ=255)
gcgcCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAAc < 1:1351502/70‑1 (MQ=255)
gcCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTTAACTGGCGTTCGAGCAGATGAACaa < 1:1654807/70‑1 (MQ=255)
tCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAg < 1:810970/56‑1 (MQ=255)
cAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACa > 1:2355303/1‑65 (MQ=255)
aaCATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATg > 1:503360/1‑67 (MQ=255)
aaCATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCg > 1:2054964/1‑70 (MQ=255)
aaCATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCg > 1:1358583/1‑70 (MQ=255)
aaCATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCg < 1:374005/70‑1 (MQ=255)
aCATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGaa < 1:721239/71‑1 (MQ=255)
cATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGaa < 1:1466644/70‑1 (MQ=255)
cATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGaa < 1:1017903/70‑1 (MQ=255)
aTGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAata < 1:675031/71‑1 (MQ=255)
aTGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAata < 1:17160/71‑1 (MQ=255)
aTGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAata < 1:1704255/71‑1 (MQ=255)
aTGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAata > 1:753707/1‑71 (MQ=255)
aTGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAata < 1:608178/71‑1 (MQ=255)
aTGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTg < 1:2029209/37‑1 (MQ=255)
aTGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGaa > 1:1917177/1‑39 (MQ=255)
gCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAatata > 1:395238/1‑71 (MQ=255)
gCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGaa > 1:1643231/1‑37 (MQ=255)
ttCTCCGCCACGCTTTCGTACCGGGTACGTGATCTGGCGTTCGAGCAGATGAACAATGCCGAATATATTg < 1:2765686/70‑1 (MQ=255)
ttCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTg < 1:1529742/70‑1 (MQ=255)
tctcCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTg > 1:1709625/1‑69 (MQ=255)
ctcCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAg > 1:129481/1‑71 (MQ=255)
aCGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAAc < 1:2671507/45‑1 (MQ=255)
aCCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAAc > 1:26592/1‑60 (MQ=255)
aCCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAAc > 1:171604/1‑60 (MQ=255)
aCCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGAACAGaa < 1:2340186/70‑1 (MQ=255)
|
GGCTGTTCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGAACAGAA > W3110S.gb/3671592‑3671727
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
