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 |
1,259,859 |
A→C |
20.3% |
I355M (ATT→ATG) |
torZ ← |
trimethylamine N‑oxide reductase system III, catalytic subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,259,859 | 0 | A | C | 20.3%
| 104.0
/ 32.4
| 64 | I355M (ATT→ATG) | torZ | trimethylamine N‑oxide reductase system III, catalytic subunit |
| Reads supporting (aligned to +/- strand): ref base A (17/34); new base C (9/4); total (26/38) |
| Fisher's exact test for biased strand distribution p-value = 2.72e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAGTTTGACTATCTGCGCT > minE/1259791‑1259928
|
atttGCCCCAACATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCAt > 1:1223111/4‑71 (MQ=255)
ccTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCa < 1:843594/71‑1 (MQ=255)
ccTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCa < 1:3514365/71‑1 (MQ=255)
caaCATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGc > 1:3033525/2‑71 (MQ=255)
aCATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCt > 1:2520160/1‑71 (MQ=255)
cATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTg < 1:2655954/71‑1 (MQ=255)
gctgccAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCa < 1:3094874/67‑1 (MQ=255)
gccgccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCAt > 1:2221078/1‑71 (MQ=255)
gccgccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCAt > 1:2216343/1‑71 (MQ=255)
ctgccAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCAt > 1:3379490/3‑70 (MQ=255)
ctgccAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCAt < 1:2241161/68‑1 (MQ=255)
gccAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCATCAg > 1:1137738/1‑71 (MQ=255)
gccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAg > 1:2827844/1‑71 (MQ=255)
ccAGCCTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTg < 1:1938514/63‑1 (MQ=255)
cAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCa < 1:462589/71‑1 (MQ=255)
cAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCa > 1:3621450/1‑71 (MQ=255)
cAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCa < 1:3841247/71‑1 (MQ=255)
cAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCa < 1:235307/71‑1 (MQ=255)
cAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCa < 1:1507521/71‑1 (MQ=255)
cAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCa < 1:1910719/71‑1 (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 < 1:2928067/71‑1 (MQ=255)
gCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTc > 1:3191134/1‑71 (MQ=255)
aTCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTcgc < 1:802895/71‑1 (MQ=255)
tCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTcgcc < 1:715872/71‑1 (MQ=255)
cAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCATc > 1:1671019/1‑51 (MQ=255)
cAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCATc > 1:3445555/1‑51 (MQ=255)
cAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCATc > 1:1226739/1‑51 (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 < 1:1407074/71‑1 (MQ=255)
tgtTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCAt < 1:1126505/71‑1 (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)
gcgcTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCTCCGCCATCAGTTCAGCGAGTTTGACTATCt < 1:816315/71‑1 (MQ=255)
gcgcTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAGTTTGACTAt < 1:3090433/69‑1 (MQ=255)
gcTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAGTTTGACTATCTgc < 1:1413161/71‑1 (MQ=255)
cTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAGTTTGACTATCTgcg < 1:1911283/71‑1 (MQ=255)
gAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAGTTTGa > 1:2623334/1‑60 (MQ=255)
gAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAGTTTGACTATCTGCGCt > 1:720879/1‑71 (MQ=255)
aaTTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGc < 1:842486/51‑1 (MQ=255)
aaTTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAg < 1:3915133/54‑1 (MQ=255)
|
ATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGATTCGCCGCCATCAGTTCAGCGAGTTTGACTATCTGCGCT > minE/1259791‑1259928
|
| 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
