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 |
2,720,297 |
G→A |
27.5% |
W563* (TGG→TGA) |
yfiQ → |
fused predicted acyl‑CoA synthetase NAD(P)‑binding subunit and ATP‑binding subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,720,297 | 0 | G | A | 27.5%
| 62.2
/ 25.5
| 40 | W563* (TGG→TGA) | yfiQ | fused predicted acyl‑CoA synthetase NAD(P)‑binding subunit and ATP‑binding subunit |
| Reads supporting (aligned to +/- strand): ref base G (14/15); new base A (4/7); total (18/22) |
| Fisher's exact test for biased strand distribution p-value = 7.23e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.27e-01 |
CAGCCAATGAAGTCCAGCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTATGGCTAACCGTGCTGGCGCTCAGGAGTT > W3110S.gb/2720239‑2720362
|
cAGCCAATGAAGTCCAGCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCgg > 1:4206058/1‑71 (MQ=255)
cAGCCAATGAAGTCCAGCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCgg > 1:4076739/1‑71 (MQ=255)
cAGCCAATGAAGTCCAGCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCgg > 1:2486088/1‑71 (MQ=255)
cAATGAAGTCCAGCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGACCACAGGCGCGGGTc < 1:368351/70‑1 (MQ=255)
aaTGAAGTCCAGCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGACCACAGGCGCGGGTCCa < 1:3554483/71‑1 (MQ=255)
tGAAGTCCAGCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACg > 1:3577514/1‑71 (MQ=255)
gTCCAGCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCt > 1:2668376/1‑71 (MQ=255)
tCCAGCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGACCACAGGCGCGGGTCCACGGCCTg < 1:2928439/71‑1 (MQ=255)
cAGCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGtt > 1:107346/1‑71 (MQ=255)
cAGCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGtt > 1:3267634/1‑71 (MQ=255)
cAGCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGt < 1:3813934/70‑1 (MQ=255)
gCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTgg < 1:2236812/71‑1 (MQ=255)
gCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGACCACAGGCGCGGGTCCACGGCCTGt > 1:3471797/1‑68 (MQ=255)
cAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTgg < 1:1185610/70‑1 (MQ=255)
cAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGt > 1:776345/1‑71 (MQ=255)
gcggcgAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCa < 1:894989/71‑1 (MQ=255)
gcgAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCTCGGGTCCACGGCCTGTTGGTGCAAAg < 1:4217985/71‑1 (MQ=255)
cgAACGCTATTTTCGATCGCGTAAAAAtggcctggcc < 1:1595188/37‑1 (MQ=255)
cgAACGCTATTTTCGATCGCGTAAAAATGGCCTGACCACAGGCGCGGGTCCa > 1:4008453/1‑52 (MQ=255)
cgAACGCTATTTTCGATCGCGTAAAAATGGCCTGACCACAGGCGCGGGTCCa > 1:4003175/1‑52 (MQ=255)
aaCGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTAt < 1:936169/71‑1 (MQ=255)
aaCGCTATTTTCGATCGCGTAAAAATGGCCTGACCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTAt < 1:4084293/71‑1 (MQ=255)
cTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTc < 1:3905658/44‑1 (MQ=255)
tATTTTCGATCGCGTAAAAATGGCCTGGGCACAGGCGCGGGTCCACGGCCTGTTGGTGCaa > 1:345216/1‑61 (MQ=255)
ttttCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACgg > 1:2246197/1‑46 (MQ=255)
ttttCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCaa < 1:1133937/59‑1 (MQ=255)
ttttCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTa > 1:3370274/1‑63 (MQ=255)
ttttCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTATGGCTaa < 1:3218885/70‑1 (MQ=255)
ttttCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTATGGCTa < 1:705581/69‑1 (MQ=255)
ttttCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTATGGCTAAc > 1:1907304/1‑71 (MQ=255)
ttttCGATCGCGTAAAAATGGCCTGACCACAGGCGCGGGTCCACGGCCTGTTg < 1:4339248/53‑1 (MQ=255)
ttCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTc < 1:942176/39‑1 (MQ=255)
ttCGATCGCGTAAAAATGGCCTGACCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTAt < 1:2767395/62‑1 (MQ=255)
tCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCa > 1:2690862/1‑40 (MQ=255)
aTCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTATGGCTAACCg < 1:67572/67‑1 (MQ=255)
tCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTATGGCTAACCGTGCTg > 1:3259818/1‑71 (MQ=255)
tAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTATGGCCAACCGTGCTGGCGCt < 1:2484327/71‑1 (MQ=255)
aaTGGCCTGACCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTATGGCTAACCGTGCTGGCGCTCAg > 1:1166135/1‑70 (MQ=255)
aTGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTATGGCTAACCGTGCTGGCGCTCAgg < 1:346156/70‑1 (MQ=255)
aTGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTATGGCTAACCGTGCTGGCGCTCAgg < 1:3018697/70‑1 (MQ=255)
aTGGCCTGACCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAg < 1:4630329/44‑1 (MQ=255)
tggcctggccACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTATGGCTAACCGTGCTGGCGCTCAGGa > 1:3208071/1‑70 (MQ=255)
gcctggccACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTATGGCTAACCGTGCTGGCGCTCAGGAGtt > 1:828550/1‑71 (MQ=255)
|
CAGCCAATGAAGTCCAGCAAGCGGCGAACGCTATTTTCGATCGCGTAAAAATGGCCTGGCCACAGGCGCGGGTCCACGGCCTGTTGGTGCAAAGTATGGCTAACCGTGCTGGCGCTCAGGAGTT > W3110S.gb/2720239‑2720362
|
| 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
