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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,259,850 |
C→T |
21.4% |
Q358Q (CAG→CAA) |
torZ ← |
trimethylamine N‑oxide reductase system III, catalytic subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,259,850 | 0 | C | T | 21.4%
| 141.0
/ 32.7
| 70 | Q358Q (CAG→CAA) | torZ | trimethylamine N‑oxide reductase system III, catalytic subunit |
| Reads supporting (aligned to +/- strand): ref base C (23/32); new base T (10/5); total (33/37) |
| Fisher's exact test for biased strand distribution p-value = 1.43e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAGTTTGAC > minE/1259781‑1259918
|
cGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGc > 1:589207/1‑70 (MQ=255)
cGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCt > 1:1012164/1‑71 (MQ=255)
cGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCt > 1:1824658/1‑71 (MQ=255)
ggTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTg > 1:1156444/1‑71 (MQ=255)
ggTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTg < 1:1504740/71‑1 (MQ=255)
gtACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGgcg > 1:3950268/1‑71 (MQ=255)
tACCAATCTGCCCTAACATCGCCTCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGgcg < 1:1955581/70‑1 (MQ=255)
atttGCCCCAACATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCAt > 1:1223111/4‑71 (MQ=255)
tGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTg > 1:3121549/1‑65 (MQ=255)
tGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTg > 1:3416274/1‑65 (MQ=255)
ccTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGacgc > 1:2492214/1‑60 (MQ=255)
ccTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCa < 1:3514365/71‑1 (MQ=255)
ccTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCa < 1:843594/71‑1 (MQ=255)
caaCATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTg < 1:2524134/59‑1 (MQ=255)
caaCATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGc > 1:3033525/2‑71 (MQ=255)
aCATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTgca > 1:3921167/1‑58 (MQ=255)
aCATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCt > 1:2520160/1‑71 (MQ=255)
aCATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTg > 1:3673769/1‑58 (MQ=255)
cATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTg < 1:2655954/71‑1 (MQ=255)
gctgccAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCa < 1:3094874/67‑1 (MQ=255)
gccgccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGc > 1:3002658/1‑45 (MQ=255)
gccgccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGc > 1:1904084/1‑45 (MQ=255)
gccgccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCAt > 1:2216343/1‑71 (MQ=255)
gccgccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCAt > 1:2221078/1‑71 (MQ=255)
ctgccAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCAt < 1:2241161/68‑1 (MQ=255)
ctgccAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCAt > 1:3379490/3‑70 (MQ=255)
gccAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCATCAg > 1:1137738/1‑71 (MQ=255)
gccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAg > 1:2827844/1‑71 (MQ=255)
ccAGCCTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTg < 1:1938514/63‑1 (MQ=255)
cAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCa < 1:1507521/71‑1 (MQ=255)
cAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCa < 1:235307/71‑1 (MQ=255)
cAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCa < 1:1910719/71‑1 (MQ=255)
cAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCa > 1:3621450/1‑71 (MQ=255)
cAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCa < 1:462589/71‑1 (MQ=255)
cAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCa < 1:3841247/71‑1 (MQ=255)
aGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCAt > 1:792378/1‑71 (MQ=255)
gCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCATCAGCAtg < 1:480872/71‑2 (MQ=255)
gCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCATCAGCAtg < 1:1881162/71‑2 (MQ=255)
cGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATtg > 1:1084140/1‑71 (MQ=255)
gTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATtgt < 1:415203/71‑1 (MQ=255)
gTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATtg < 1:371696/70‑1 (MQ=255)
cACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGc > 1:2726561/1‑71 (MQ=255)
aGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGAtt > 1:3160833/1‑71 (MQ=255)
gCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTc > 1:3191134/1‑71 (MQ=255)
gCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTc < 1:2928067/71‑1 (MQ=255)
aTCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTcgc < 1:802895/71‑1 (MQ=255)
tCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTcgcc < 1:715872/71‑1 (MQ=255)
cAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCATc > 1:1671019/1‑51 (MQ=255)
cAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCATc > 1:1226739/1‑51 (MQ=255)
cAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCATc > 1:3445555/1‑51 (MQ=255)
cAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCATc > 1:1240331/1‑51 (MQ=255)
gtgtTTCTGTTCACCATATTGCTGGCGCTGAATTcccc < 1:352911/38‑1 (MQ=255)
gtgtTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGAt < 1:1949623/62‑1 (MQ=255)
tgtTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTc < 1:3684044/63‑1 (MQ=255)
tgtTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCAt < 1:1126505/71‑1 (MQ=255)
tgtTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCAt < 1:1407074/71‑1 (MQ=255)
gtTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGGCATCAGCATTGTGCGATTCGCCGCCAt > 1:34580/1‑70 (MQ=255)
gtTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGc < 1:494234/57‑1 (MQ=255)
tttCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTcgccgc < 1:295695/66‑1 (MQ=255)
tttCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCgccgcc < 1:3369877/67‑1 (MQ=255)
tttCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATc < 1:1356276/70‑1 (MQ=255)
tttCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATc < 1:3370159/70‑1 (MQ=255)
tCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAg < 1:57242/70‑1 (MQ=255)
cTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGtt > 1:310941/1‑71 (MQ=255)
cTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGtt > 1:3924097/1‑71 (MQ=255)
cACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGc < 1:3130496/70‑1 (MQ=255)
aCCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGa < 1:2943778/71‑1 (MQ=255)
ccATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAg < 1:2178134/71‑1 (MQ=255)
cATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAGt > 1:3100847/1‑71 (MQ=255)
tatTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAGttt < 1:3767300/71‑1 (MQ=255)
tGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCAt > 1:1236801/1‑53 (MQ=255)
tGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCAACAGTTCAGCGAGTTTGAc > 1:1866554/1‑71 (MQ=255)
gCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAGTTTGAc < 1:780591/70‑1 (MQ=255)
|
CGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAGTTTGAC > minE/1259781‑1259918
|
| 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
