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 |
|
A5 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,915,241 |
A→G |
12.3% |
E48G (GAG→GGG) |
glyQ → |
glycine tRNA synthetase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,915,241 | 0 | A | G | 12.3%
| 167.5
/ 13.6
| 65 | E48G (GAG→GGG) | glyQ | glycine tRNA synthetase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base A (27/30); new base G (5/3); total (32/33) |
| Fisher's exact test for biased strand distribution p-value = 4.75e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCATTGTTCAACCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATGGTCGCTAC > W3110S.gb/3915175‑3915308
|
ccATTGTTCAACCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCt < 1:3067803/70‑1 (MQ=255)
ccATTGTTCAACCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTg < 1:539991/71‑1 (MQ=255)
aTTGTTCAACCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCt < 1:2949987/68‑1 (MQ=255)
cAACCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGGGCTGGGGCCAg < 1:4039037/70‑1 (MQ=255)
cAACCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAg < 1:827801/70‑1 (MQ=255)
aaCCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTgg > 1:4566463/1‑63 (MQ=255)
aaCCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGaa > 1:4212920/1‑71 (MQ=255)
aCCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAAc > 1:2979235/1‑71 (MQ=255)
ccATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAAcc > 1:2463782/1‑71 (MQ=255)
ccATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAAcc > 1:3531490/1‑71 (MQ=255)
ccATTGGACATGAAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAAcc > 1:4102757/1‑71 (MQ=255)
cATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCg < 1:2840036/71‑1 (MQ=255)
ggACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGGGCTGGGGCCAGAACCGATg < 1:2016114/70‑1 (MQ=255)
ggACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATgg > 1:21625/1‑71 (MQ=255)
ggACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATgg > 1:3532797/1‑71 (MQ=255)
ggACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATg > 1:3503423/1‑70 (MQ=255)
aCATGGAAGTCGGCGCGTGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATggcg < 1:923754/71‑1 (MQ=255)
cATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGGGCTGGGGCCAGAACCGATggcgg > 1:3469975/1‑71 (MQ=255)
ggAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGgct > 1:3425323/1‑70 (MQ=255)
aaGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTg < 1:1483888/47‑1 (MQ=255)
gTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGAt < 1:160581/59‑1 (MQ=255)
gcgGGAACCTCTCACCCAATGACCTGTCTGCGCGGGCTGGGGCCAGAACCGATGGCGGCTGCTTATGtt > 1:4245245/1‑69 (MQ=255)
ggAAGCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATg < 1:4608193/51‑1 (MQ=255)
ggAACCTCTCACCCAATGACCTGTCTGCGCGGGCTGGGGCCAg < 1:2454484/43‑1 (MQ=255)
gAACCTCTCACCCAATGACCTGTCTGCGCGATCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCt > 1:3468450/1‑71 (MQ=255)
gAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGtt < 1:1317128/65‑1 (MQ=255)
aCCTCTCACCCAATGACCTTTCTGCGCGGGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCa > 1:1266343/1‑65 (MQ=255)
ccTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAAc < 1:3008339/42‑1 (MQ=255)
ccTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGAt > 1:1903607/1‑46 (MQ=255)
tctcACCCAATGACCTGTCTGCGCGATCTGGGGCCAGa < 1:3917498/38‑1 (MQ=255)
ctcACCCAATGACCTGTCTGCGCGGGCTGGGGCCAGAACCg > 1:3745343/1‑41 (MQ=255)
ctcACCCAATGACCTGTCTGCGCGATCTGGGGCCAGAACCGATGGCGGCTGCTTa < 1:1056570/55‑1 (MQ=255)
ctcACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCtt > 1:2116824/1‑66 (MQ=255)
ctcACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCtcgt > 1:1770257/1‑71 (MQ=255)
ctcACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCtcg < 1:1368518/70‑1 (MQ=255)
tcACCCAATGACCTGTCTGCGCGATCTGGGGCCAGAACCGATGGCGGCTGCTTa < 1:4432742/54‑1 (MQ=255)
tcACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGAt > 1:2513126/1‑42 (MQ=255)
tcACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATggcgg > 1:1968851/1‑47 (MQ=255)
tcACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCtcg < 1:84763/69‑1 (MQ=255)
cACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCtcgtcg > 1:657681/1‑71 (MQ=255)
cACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCtcgtcg > 1:3986464/1‑71 (MQ=255)
aCCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCtcgtc < 1:3300468/69‑1 (MQ=255)
aCCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGc > 1:3682105/1‑71 (MQ=255)
cccAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGgctgct < 1:2818571/49‑1 (MQ=255)
cccAATGACCTGGCTGCGCGAGCGGGGGCCAGAACCGATgg < 1:1688040/41‑1 (MQ=25)
ccAATGACCTGTCTGCGCGGGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGca > 1:957578/1‑58 (MQ=255)
ccAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGccc > 1:899472/1‑71 (MQ=255)
ccAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGcc > 1:1215509/1‑70 (MQ=255)
cAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGa > 1:1106977/1‑36 (MQ=255)
cAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGa > 1:460688/1‑36 (MQ=255)
cAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTa > 1:2743991/1‑49 (MQ=255)
aTGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTAt < 1:3477871/48‑1 (MQ=255)
aTGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCccgac > 1:4368824/1‑71 (MQ=255)
tGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATggc < 1:6238/37‑1 (MQ=255)
aCCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCccgaccg < 1:4249214/70‑1 (MQ=255)
cTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATg < 1:4508480/71‑1 (MQ=255)
cTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATg < 1:906411/71‑1 (MQ=255)
gTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATg > 1:1740452/1‑42 (MQ=255)
tCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATgg < 1:3585449/69‑1 (MQ=255)
tGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATg > 1:4278549/1‑66 (MQ=255)
tGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATg < 1:226996/66‑1 (MQ=255)
cgcgAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATGGTCGc < 1:2935541/69‑1 (MQ=255)
cgcgAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATGGTCGCt < 1:3188956/70‑1 (MQ=255)
cgcgAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATGGTCGCTa < 1:2725159/71‑1 (MQ=255)
gAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATGGTCGCTAc < 1:204347/69‑1 (MQ=255)
aGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCccga > 1:3539610/1‑54 (MQ=255)
|
CCATTGTTCAACCATTGGACATGGAAGTCGGCGCGGGAACCTCTCACCCAATGACCTGTCTGCGCGAGCTGGGGCCAGAACCGATGGCGGCTGCTTATGTTCAGCCTTCTCGTCGCCCGACCGATGGTCGCTAC > W3110S.gb/3915175‑3915308
|
| 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
