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 |
2,198,825 |
G→A |
A398T (GCG→ACG) |
metG → |
methionyl‑tRNA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,198,825 | 0 | G | A | 98.6%
| 209.5
/ ‑4.0
| 70 | A398T (GCG→ACG) | metG | methionyl‑tRNA synthetase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (54/15); minor base T (1/0); total (55/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.74e-01 |
CGTTCAGCGTGTGAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATGCGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGTTGTACA > W3110S.gb/2198767‑2198891
|
cGTTCAGCGTGTGAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATc < 1:3076697/70‑1 (MQ=255)
cGTTCAGCGTGTGAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATc < 1:957731/70‑1 (MQ=255)
cGTTCAGCGTGTGAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATc < 1:3541149/70‑1 (MQ=255)
cGTTCAGCGTGTGAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATc < 1:3053835/70‑1 (MQ=255)
cGTTCAGCGTGTGAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATc < 1:1720621/70‑1 (MQ=255)
cGTGTGAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCg > 1:3518398/1‑71 (MQ=255)
cGTGTGAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCg > 1:3774261/1‑71 (MQ=255)
cGTGTGAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCg > 1:2111062/1‑71 (MQ=255)
cGTGTGAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCg > 1:3904877/1‑71 (MQ=255)
tgtgAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGtt < 1:2863684/71‑1 (MQ=255)
gtgAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTa > 1:2349644/1‑58 (MQ=255)
gtgAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGttt > 1:3156077/1‑71 (MQ=255)
gtgAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGttt > 1:2522253/1‑71 (MQ=255)
gtgAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGttt > 1:2337349/1‑71 (MQ=255)
aaTGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGa > 1:381391/1‑71 (MQ=255)
gCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACgg > 1:1245283/1‑71 (MQ=255)
ccGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGc > 1:3499963/1‑71 (MQ=255)
cGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTTACGGCg < 1:3639/71‑1 (MQ=255)
cGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCg < 1:3777160/71‑1 (MQ=255)
cGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCg < 1:2108485/71‑1 (MQ=255)
cGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCg < 1:1872648/71‑1 (MQ=255)
cGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCg < 1:3937564/71‑1 (MQ=255)
cGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCg < 1:4039810/71‑1 (MQ=255)
cGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCg < 1:2375687/71‑1 (MQ=255)
cGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCg < 1:1341388/71‑1 (MQ=255)
cGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCg < 1:1325277/71‑1 (MQ=255)
gTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTgg > 1:65151/1‑70 (MQ=255)
gTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTgg > 1:3617098/1‑70 (MQ=255)
gTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTgg > 1:740620/1‑70 (MQ=255)
gTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTgg > 1:3134469/1‑70 (MQ=255)
gTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTgg > 1:1253508/1‑70 (MQ=255)
gTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTgg > 1:2796358/1‑70 (MQ=255)
gTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTgg > 1:1882612/1‑70 (MQ=255)
gTTAACAAAGTGGTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTgg > 1:2340112/1‑70 (MQ=255)
gTTAACCTGGCCTCCCGTAATTCGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGc > 1:4024324/1‑71 (MQ=255)
gTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGc > 1:677757/1‑71 (MQ=255)
gTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGc > 1:3949363/1‑71 (MQ=255)
gTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGc > 1:603726/1‑71 (MQ=255)
gTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGc > 1:1594907/1‑71 (MQ=255)
gTTAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGc > 1:1307610/1‑71 (MQ=255)
tAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGtttt > 1:771570/1‑43 (MQ=255)
tAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGtttt > 1:3418013/1‑43 (MQ=255)
tAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGtttt > 1:2601502/1‑43 (MQ=255)
tAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGtttt > 1:2630704/1‑43 (MQ=255)
tAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGtttt > 1:549072/1‑43 (MQ=255)
tAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGttt > 1:701440/1‑42 (MQ=255)
tAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGttt > 1:3382773/1‑42 (MQ=255)
tAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGttt > 1:85438/1‑42 (MQ=255)
tAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGttt > 1:1112556/1‑42 (MQ=255)
tAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGttt > 1:4014742/1‑42 (MQ=255)
tAACCTGGCCTCCCGTAATACGGGCTTTATCAACAAGCGttt > 1:2731058/1‑42 (MQ=255)
tAACCTGGACTCCCGTAATACGGGCTTTATCAACAAGCGttt > 1:35117/1‑42 (MQ=38)
cTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGt > 1:1093212/1‑71 (MQ=255)
cTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGt > 1:4132276/1‑71 (MQ=255)
cTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGt > 1:4087859/1‑71 (MQ=255)
cTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGt > 1:1647687/1‑71 (MQ=255)
cTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGt > 1:1184062/1‑71 (MQ=255)
cTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGt > 1:2540457/1‑71 (MQ=255)
cTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGt > 1:1015177/1‑71 (MQ=255)
cTCCCGTAATACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGt > 1:271483/1‑71 (MQ=255)
aaTACGGGCTTTATCAACAAGCGTTTTGACGGCGTGc > 1:3458538/1‑37 (MQ=255)
aaTACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGAcc > 1:601060/1‑58 (MQ=255)
aaTACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGTTGTACa > 1:1897206/1‑70 (MQ=255)
aaTACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGTTGTACa > 1:1995241/1‑70 (MQ=255)
aaTACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGTTGTACa > 1:4138051/1‑70 (MQ=255)
aaTACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGTTGTACa > 1:2226691/1‑70 (MQ=255)
aaTACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGTTGTACa > 1:3773465/1‑70 (MQ=255)
aaTACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGTTGTACa > 1:2370399/1‑70 (MQ=255)
aaTACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGTTGTACa > 1:1102104/1‑70 (MQ=255)
aaTACGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGTTGTACa > 1:2594267/1‑70 (MQ=255)
|
CGTTCAGCGTGTGAATGCCGATATCGTTAACAAAGTGGTTAACCTGGCCTCCCGTAATGCGGGCTTTATCAACAAGCGTTTTGACGGCGTGCTGGCAAGCGAACTGGCTGACCCGCAGTTGTACA > W3110S.gb/2198767‑2198891
|
| 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
