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 |
|
A6 F28 I3 R2
|
24 |
47.7 |
2431847 |
96.1% |
2337004 |
60.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
2,019,887 |
C→T |
Q169* (CAA→TAA) |
dkgA → |
2,5‑diketo‑D‑gluconate reductase A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,019,887 | 0 | C | T | 98.2%
| 182.4
/ ‑3.9
| 57 | Q169* (CAA→TAA) | dkgA | 2,5‑diketo‑D‑gluconate reductase A |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (29/27); total (29/28) |
| Fisher's exact test for biased strand distribution p-value = 4.91e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
GATTGATGAAACTGGCGTGACGCCTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAACAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGACCGAATCCTGGAGCCCATTA > minE/2019826‑2019949
|
gattgatGAAACTGGCGTGACGCCTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGc > 1:355539/1‑71 (MQ=255)
gattgatGAAACTGGCGTGACGCCTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGc > 1:2367492/1‑71 (MQ=255)
ttgatGAAACTGGCGTGACGCCTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCt > 1:2194192/1‑70 (MQ=255)
gatgaAACTGGCGTGACGCCTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTaca > 1:102033/1‑71 (MQ=255)
aaCTGGCGTGACGCCTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTacac < 1:1898530/67‑1 (MQ=255)
aaCTGGCGTGACGCCTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCt < 1:649435/71‑1 (MQ=255)
aCTGGCGTGACGCCTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTg > 1:2226675/1‑71 (MQ=255)
gCGTGACGCCTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGaa > 1:172307/1‑70 (MQ=255)
gCGTGACGCCTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAAc > 1:1970278/1‑71 (MQ=255)
cGCCTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGaca > 1:1142331/1‑71 (MQ=255)
cTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGacaca > 1:122279/1‑70 (MQ=255)
cTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGacaca > 1:1271647/1‑70 (MQ=255)
cTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGacaca > 1:1370624/1‑70 (MQ=255)
tgtgATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGcc < 1:913238/44‑1 (MQ=255)
gtgATAAACCAGATCGAACTTCATCCTCTGATGCAATAACGcc < 1:1250543/43‑1 (MQ=38)
gtgATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGAcacaca > 1:676758/1‑70 (MQ=255)
tgATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTgg < 1:1092282/56‑1 (MQ=255)
tgATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACaa < 1:77061/70‑1 (MQ=255)
tgATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACaa > 1:736416/1‑70 (MQ=255)
tgATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACaa > 1:2027288/1‑70 (MQ=255)
gATAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACaaaa > 1:1141683/1‑71 (MQ=255)
aTAAACCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACaaaa < 1:1230532/70‑1 (MQ=255)
aTAAACCAGATCGAACTTCATCCGCTGATGCAACAACGCCAGCTACACGCCTGGAACGCGACACACAAAAt < 1:1983309/71‑1 (MQ=255)
aaaCCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGac > 1:1651449/1‑60 (MQ=255)
aaaCCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATc > 1:175439/1‑70 (MQ=255)
aaCCAGATCGAACTTCATCCGCTGATGCAATAACGc < 1:1487591/36‑1 (MQ=255)
aaCCAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATcc < 1:1179318/70‑1 (MQ=255)
ccAGATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGa < 1:1407958/71‑1 (MQ=255)
gATCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGAcc > 1:1704792/1‑70 (MQ=255)
aTCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACg < 1:1531827/40‑1 (MQ=255)
aTCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACg < 1:158187/40‑1 (MQ=255)
aTCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAAt < 1:2415787/62‑1 (MQ=255)
aTCGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGACCGa < 1:971143/71‑1 (MQ=255)
cGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGcc > 1:1188602/1‑40 (MQ=255)
cGAACTTCATCCGCTGATGCAATAACGCCAGCTACACGc > 1:700109/1‑39 (MQ=255)
gAACTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGACCGAATc < 1:164307/71‑1 (MQ=255)
aaCTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAAt < 1:302719/58‑1 (MQ=255)
aaCTTCATCCCCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAg < 1:2408739/62‑1 (MQ=255)
aCTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGACCGAATcc < 1:1250385/70‑1 (MQ=255)
aCTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGACCGAATc < 1:198655/69‑1 (MQ=255)
aCTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGACCGAATCCt < 1:32890/71‑1 (MQ=255)
aCTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGACCGAATCCt < 1:33555/71‑1 (MQ=255)
cTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGAc > 1:1732122/1‑62 (MQ=255)
cTTCATCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGACCGAATCCTg > 1:1508194/1‑71 (MQ=255)
tCCGCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGACCGAATCCTGGAGcc < 1:2176485/71‑1 (MQ=255)
gCTGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGACCGAATCCTGGAGCCCAt < 1:2398254/71‑1 (MQ=255)
cTGATGCAATACCGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGAcc > 1:625579/1‑54 (MQ=39)
tGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACaaaa > 1:1563849/1‑45 (MQ=255)
tGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAAt > 1:1826477/1‑46 (MQ=255)
tGATGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAAt > 1:2276198/1‑46 (MQ=255)
aTGCAATAACGCCAGCTACACGCCTGGAACGCGACACACaaaa < 1:2070978/43‑1 (MQ=255)
aTGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATc < 1:746485/45‑1 (MQ=255)
aTGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGa > 1:2274881/1‑49 (MQ=255)
aTGCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGACCGAATCCTGGAGCCCATTa < 1:2166746/69‑1 (MQ=255)
gCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCa > 1:1213486/1‑45 (MQ=255)
gCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCa > 1:1119045/1‑45 (MQ=255)
gCAATAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGAcc < 1:2118023/49‑1 (MQ=255)
|
GATTGATGAAACTGGCGTGACGCCTGTGATAAACCAGATCGAACTTCATCCGCTGATGCAACAACGCCAGCTACACGCCTGGAACGCGACACACAAAATCCAGACCGAATCCTGGAGCCCATTA > minE/2019826‑2019949
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
