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 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,671,661 |
G→A |
29.2% |
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 | 29.2%
| 79.6
/ 40.4
| 55 | R204Q (CGG→CAG) | rhlB | ATP‑dependent RNA helicase |
| Reads supporting (aligned to +/- strand): ref base G (16/22); new base A (7/9); total (23/32) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.69e-01 |
TTCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGA > W3110S.gb/3671597‑3671721
|
ttCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCg < 1:1121278/65‑1 (MQ=255)
ccgccgTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGt > 1:244755/1‑70 (MQ=255)
cgccgTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTg < 1:3030077/70‑1 (MQ=255)
cgccgTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTg < 1:2157654/70‑1 (MQ=255)
gccgTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCTGGTACGTg < 1:2311666/69‑1 (MQ=255)
gccgTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGaa < 1:4315532/71‑1 (MQ=255)
ccgTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAAc < 1:1163992/71‑1 (MQ=255)
tGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCg > 1:3076658/1‑71 (MQ=255)
tGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCg > 1:2267598/1‑71 (MQ=255)
tGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCg > 1:2462812/1‑71 (MQ=255)
cTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGa < 1:2018832/58‑1 (MQ=255)
tGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACg > 1:3310439/1‑54 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAg > 1:4175115/1‑68 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAg > 1:763092/1‑68 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCa < 1:3025088/70‑1 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCa < 1:146860/70‑1 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGc < 1:1937902/69‑1 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGc < 1:224891/69‑1 (MQ=255)
cAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGc < 1:1294114/69‑1 (MQ=255)
aaaCCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGaa > 1:2204182/1‑55 (MQ=255)
aaaCCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCa < 1:4610903/69‑1 (MQ=255)
aaaCCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGa < 1:4313378/71‑1 (MQ=255)
aaaCCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGa < 1:3482841/71‑1 (MQ=255)
aaCCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAAc > 1:4620052/1‑55 (MQ=255)
aaCCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGAt > 1:2976961/1‑71 (MQ=255)
cAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGaa < 1:1994348/71‑1 (MQ=255)
aGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAAc < 1:4190319/71‑1 (MQ=255)
gcgcCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCa < 1:3035332/63‑1 (MQ=255)
gcCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAAc < 1:3193312/68‑1 (MQ=255)
cTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCg < 1:3303692/55‑1 (MQ=255)
cTCAACATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACaa > 1:945581/1‑68 (MQ=255)
tCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAAc < 1:2611231/65‑1 (MQ=255)
tCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACaa > 1:4141877/1‑67 (MQ=255)
aaCATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCg < 1:861380/70‑1 (MQ=255)
aaCATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCg > 1:1818504/1‑70 (MQ=255)
aaCATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCg > 1:4443547/1‑70 (MQ=255)
aaCATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCg > 1:1483438/1‑70 (MQ=255)
aaCATGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCg > 1:1211538/1‑70 (MQ=255)
aCATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGaa < 1:1959441/71‑1 (MQ=255)
aCATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGaa > 1:4568385/1‑71 (MQ=255)
aTGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAata > 1:2883804/1‑71 (MQ=255)
tGCTGTTCTCCGCCACGCTTTCGTACCAGGTACGTg < 1:3115038/36‑1 (MQ=255)
gCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAatat > 1:1618580/1‑70 (MQ=255)
cTGTTCTCCGCCACTCATTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCg < 1:4593028/64‑1 (MQ=255)
ttCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTg > 1:2826228/1‑70 (MQ=255)
gctcCGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGaa < 1:2837735/70‑1 (MQ=255)
ctcCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGAt < 1:471907/48‑1 (MQ=255)
cGCCACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTg > 1:4102145/1‑70 (MQ=255)
ccACGCTTTCGTACCGGGTACGTGAACTGGCGTTCg < 1:1989309/36‑1 (MQ=255)
ccACGCTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGa < 1:3844257/45‑1 (MQ=255)
gCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCgg < 1:1879369/71‑1 (MQ=255)
cTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACaa > 1:183189/1‑44 (MQ=255)
cTTTCGTACCAGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGa < 1:4173578/71‑1 (MQ=255)
ttCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGa < 1:240348/57‑1 (MQ=255)
cGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACaa > 1:4627422/1‑40 (MQ=255)
tACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGaa < 1:253841/45‑1 (MQ=255)
|
TTCCGCCGTATGCCGCCTGCAAACCAGCGCCTCAACATGCTGTTCTCCGCCACGCTTTCGTACCGGGTACGTGAACTGGCGTTCGAGCAGATGAACAATGCCGAATATATTGAAGTGGAACCGGA > W3110S.gb/3671597‑3671721
|
| 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
