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 |
|
A11 F56 I1 R1
|
155 |
65.2 |
3164312 |
95.9% |
3034575 |
99.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,770,087 |
C→A |
pseudogene (55/114 nt) |
yibU → |
pseudogene, H repeat‑associated protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,770,087 | 0 | C | A | 98.7%
| 263.5
/ NA
| 77 | pseudogene (55/114 nt) | yibU | pseudogene, H repeat‑associated protein |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base A (38/38); total (38/39) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGCAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAGCTAATGAAG > NC_000913/3769991‑3770181
|
gAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGa < 2:1183573/100‑1 (MQ=255)
gAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCGCATCCTGCGGAAGa > 2:1074771/1‑100 (MQ=255)
aaGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACa < 1:363382/100‑1 (MQ=255)
aGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACaa > 1:654902/1‑100 (MQ=255)
gCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAg < 1:1219136/100‑1 (MQ=255)
ccTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGa < 1:112355/100‑1 (MQ=255)
ccTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGa > 1:358712/1‑100 (MQ=255)
cTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGAt > 1:459201/1‑100 (MQ=255)
gCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATaa > 2:194714/1‑100 (MQ=255)
ttttttGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGCTGTATATTGTCATCCTGCGGAAGAACAAGACGCATaaa > 2:1231858/1‑97 (MQ=255)
tttttGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAAt < 1:1388663/100‑1 (MQ=255)
ttttGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATc > 2:717360/1‑100 (MQ=255)
ttttGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATGGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATc < 2:1010482/100‑1 (MQ=255)
tGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAGAATCCaa < 1:830837/100‑1 (MQ=255)
tGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCaa > 1:1049759/1‑100 (MQ=255)
tGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCaa < 2:415354/100‑1 (MQ=255)
ttAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATga < 2:749939/100‑1 (MQ=255)
tAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATgag > 2:1343554/1‑100 (MQ=255)
tAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATgag < 1:761047/100‑1 (MQ=255)
tAGAGACGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCAACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATgag < 2:887228/100‑1 (MQ=255)
agagCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATgaga > 1:937253/1‑100 (MQ=255)
gagCCGTCGCAGGAGGAACAACTCATATCATCATTTCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGagag < 1:856876/100‑1 (MQ=255)
gagCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGagag > 2:815441/1‑100 (MQ=255)
gagCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCGCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATgag > 2:395991/1‑98 (MQ=255)
cagTCGCAGGAGGAACAACACATATCATCATTGAAAACTCAACCATGTACAGTCTCATCATACGGAAGAACAAAACCGATAAAAAATCCGATgagat < 2:1524119/95‑2 (MQ=255)
cGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTc > 1:490817/1‑100 (MQ=255)
gCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCa > 1:1354958/1‑100 (MQ=255)
gCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCa > 2:631656/1‑100 (MQ=255)
gCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCa < 1:1098036/100‑1 (MQ=255)
cAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGCGCACACTCAt > 2:221532/1‑100 (MQ=255)
aggaggAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATACAAAATCCAATGAGAGCACACTCATc > 1:94114/1‑100 (MQ=255)
aggaggAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATc < 1:1150068/100‑1 (MQ=255)
ggaACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGa > 1:331708/1‑100 (MQ=255)
aacaacTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAAc > 1:473936/1‑100 (MQ=255)
aacaacTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAAc < 1:450811/100‑1 (MQ=255)
cTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACttatt > 1:639242/1‑100 (MQ=255)
cTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACttatt < 1:225541/100‑1 (MQ=255)
tCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGTGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACttatta < 2:1010368/100‑1 (MQ=255)
tCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACttatta < 2:209818/100‑1 (MQ=255)
cATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGCAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTaa < 2:1447798/100‑1 (MQ=255)
cATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTaa < 2:967780/100‑1 (MQ=255)
cATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTaa > 1:1387822/1‑100 (MQ=255)
atatCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCTAGAACTTATTAAc < 1:1074777/100‑1 (MQ=255)
tatCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACa < 1:1565154/100‑1 (MQ=255)
tatCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACa > 2:227143/1‑100 (MQ=255)
atcatcATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACAt > 2:315769/1‑100 (MQ=255)
atcatcATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACAt > 1:251631/1‑100 (MQ=255)
atcatTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAAt < 2:297765/100‑1 (MQ=255)
tcatTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATg < 2:937248/100‑1 (MQ=255)
tcatTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATg < 1:1286905/100‑1 (MQ=255)
atTGCGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGaa > 1:1356026/1‑100 (MQ=255)
cGATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATAtt > 2:185146/1‑100 (MQ=255)
gATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTa > 1:799596/1‑100 (MQ=255)
gATCTCGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTa > 2:1069641/1‑100 (MQ=255)
tctcGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTaaa > 2:379/1‑100 (MQ=255)
ctcGACGATGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAg > 1:564854/1‑100 (MQ=255)
cgacgaTGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGaa > 2:1007300/1‑100 (MQ=255)
acgaTGTATAGTCTCATACTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACACATCCAGAACTTATTAACATAATGAATATTAAAg < 2:1345469/96‑1 (MQ=255)
gaTCTATAGTCTCATCCTGCCGAAGAACAATACGGATAAAAAAACCAATTAGAGCACACTCATCCACAACTTATTAACATAATGAATATTaaa < 2:460055/93‑1 (MQ=255)
aTGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATCTTAAAGAAAAatc < 1:1074184/100‑1 (MQ=255)
tGTATAGTCTCATCCTGCGGAAGAACAAGACGGCTAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAatca > 1:1294007/1‑100 (MQ=255)
tGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAatca < 1:156430/100‑1 (MQ=255)
tGTATAGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAatca < 1:460355/100‑1 (MQ=255)
tataGTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAatcatc > 1:793500/1‑100 (MQ=255)
ggctcATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAg < 1:815446/98‑1 (MQ=255)
gTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAg > 1:840707/1‑100 (MQ=255)
gTCTCATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAg < 2:530448/100‑1 (MQ=255)
tctcATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAGc < 1:1384146/100‑1 (MQ=255)
tctcATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAGc < 1:1384104/100‑1 (MQ=255)
ctcATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAGc < 1:1104332/99‑1 (MQ=255)
tcATCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAGCTa < 2:720360/100‑1 (MQ=255)
aTCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATACTGAATATTAAAGAAAAATCATCGAAGCTAAt > 1:1339460/1‑100 (MQ=255)
aTCCTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAGCTAAt > 1:206339/1‑100 (MQ=255)
ccTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAGCTAATGa < 1:517099/100‑1 (MQ=255)
ccTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAGCTAATGa < 1:624902/100‑1 (MQ=255)
cTGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAGCTAATGaa > 1:1041078/1‑100 (MQ=255)
tGCGGAAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAGCTAATGAAg > 1:743825/1‑100 (MQ=255)
|
GAAAAGCACTCCTGCTCTTTTTTGATTAGAGCCGTCGCAGGAGGAACAACTCATATCATCATTGCGATCTCGACGATGTATAGTCTCATCCTGCGGCAGAACAAGACGGATAAAAAATCCAATGAGAGCACACTCATCCAGAACTTATTAACATAATGAATATTAAAGAAAAATCATCGAAGCTAATGAAG > NC_000913/3769991‑3770181
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
