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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,259,820 |
C→G |
20.8% |
L368L (CTG→CTC) ‡ |
torZ ← |
trimethylamine N‑oxide reductase system III, catalytic subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,259,820 | 0 | C | G | 20.8%
| 184.9
/ 40.6
| 91 | L368L (CTG→CTC) ‡ | torZ | trimethylamine N‑oxide reductase system III, catalytic subunit |
| Reads supporting (aligned to +/- strand): ref base C (43/29); new base G (14/5); total (57/34) |
| Fisher's exact test for biased strand distribution p-value = 3.00e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.34e-01 |
ATAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGAT > minE/1259757‑1259890
|
gtAAGAAAGACCAAAACCGCCGCCGGGTGTGCCGATTTGCCCCAACATTGCTGCCAGCGTGACGATCATcc < 1:138006/70‑1 (MQ=255)
gtAAGAAAGACCAAAACCGCCGCCGGGTGTGCCGATTTGCCCCAACATTGCTGCCAGCGTGACGATCATcc < 1:4525914/70‑1 (MQ=255)
tAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATc > 1:3898621/1‑69 (MQ=255)
gagaAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGc < 1:1149535/63‑1 (MQ=255)
gagaAACCAAAACCGCCGCACGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGc < 1:248870/63‑1 (MQ=255)
gaAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGtt > 1:2201941/1‑71 (MQ=255)
agaCCAAAACCGCCGCCGGGTGTGCCGATTTGCCCCAACATTGCTGCCAGCGTGACGATCATCCa > 1:402649/3‑65 (MQ=255)
gaCCAAAACCGCCGCCGGGTGTGCCGATTTGCCCCAACATTGCTGCCAGCGTGACGATCATCCAGTGtttt > 1:4128930/2‑70 (MQ=255)
aaCCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCa < 1:908069/60‑1 (MQ=255)
aaCCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTc < 1:2122035/71‑1 (MQ=255)
aCCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTc > 1:2733240/1‑70 (MQ=255)
ccAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCa > 1:2902326/1‑55 (MQ=255)
cAAAACCGCCGCCGGGTGTGCCGATTTGCCCCAACATTGCTGCCAGCGTGACGATCATCCAGTGtttt > 1:3137196/1‑67 (MQ=255)
cAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATcc < 1:1660741/60‑1 (MQ=255)
cAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAgt < 1:3178490/63‑1 (MQ=255)
aaCCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCa > 1:2015270/1‑71 (MQ=255)
aaCCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCa > 1:5384322/1‑71 (MQ=255)
cgccgcCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGt < 1:317868/65‑1 (MQ=255)
gccgccGGGTGTGCCGATTTGCCCCAACATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCa > 1:2928180/1‑70 (MQ=255)
gccgccCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCa > 1:3376499/1‑70 (MQ=255)
cgccCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTg < 1:5535675/61‑1 (MQ=255)
gccCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGttt < 1:2246028/57‑1 (MQ=255)
gccCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATAtt < 1:4789950/71‑1 (MQ=255)
ccgggTGTGCCGATTTGCCCCAACATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCa > 1:3004314/4‑63 (MQ=255)
cccGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTg > 1:2805669/1‑71 (MQ=255)
cGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGGATCCAGTGTTTCTGTTCACCATATTGCt < 1:3908737/71‑1 (MQ=255)
cGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAg > 1:1119392/1‑49 (MQ=255)
tgtACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGgc > 1:2667483/1‑71 (MQ=255)
tACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTg < 1:1224449/52‑1 (MQ=255)
tACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTg < 1:3432571/52‑1 (MQ=255)
ccAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAgtgt > 1:2839865/1‑45 (MQ=255)
ccAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAgtgt > 1:2318236/1‑45 (MQ=255)
ccAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAgtgt > 1:1547495/1‑45 (MQ=255)
tttGCCCCAACATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCAt > 1:4054543/3‑70 (MQ=255)
tttGCCCCAACATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCAt > 1:1989388/3‑70 (MQ=255)
tCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCt < 1:148507/60‑1 (MQ=255)
cTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTc > 1:761480/1‑71 (MQ=255)
cTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTc > 1:4127653/1‑71 (MQ=255)
cTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTc > 1:3686733/1‑71 (MQ=255)
tGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGtt > 1:4328969/1‑46 (MQ=255)
tGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGtt > 1:3432523/1‑46 (MQ=255)
tGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGtt > 1:402258/1‑46 (MQ=255)
tGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTcc > 1:5063077/1‑71 (MQ=255)
cccTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTcccc < 1:4124712/71‑1 (MQ=255)
cccTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTcccc < 1:2038243/71‑1 (MQ=255)
cccaaCATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTccc > 1:5694394/4‑69 (MQ=255)
cccaaCATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTccc > 1:1510680/4‑69 (MQ=255)
cccaaCATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTccc > 1:175182/4‑69 (MQ=255)
cccaaCATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCAACAAACTGTTGGCGCTGCATTCCCCa < 1:5584119/68‑1 (MQ=255)
ccTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTcccc < 1:3988489/70‑1 (MQ=255)
tAACATCGCCGCCAGCGTCACCAGCATCCAGTGtt < 1:5567807/35‑1 (MQ=255)
tAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCAc < 1:1748286/44‑1 (MQ=255)
tAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCatat < 1:3359860/49‑1 (MQ=255)
tAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCt < 1:1665276/59‑1 (MQ=255)
tAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTccc > 1:3949943/1‑67 (MQ=255)
tAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGc > 1:3334757/1‑71 (MQ=255)
aaCATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGcc > 1:1835596/1‑71 (MQ=255)
aCATTGCTGCCAGCGTGACGATCATCCAGTGtttt > 1:1916089/1‑34 (MQ=12)
aCATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTgg > 1:4864383/1‑53 (MQ=255)
aCATTGCTGCCAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTgg > 1:205362/1‑53 (MQ=255)
aCATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCata > 1:827036/1‑46 (MQ=255)
aCATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCata > 1:5096688/1‑46 (MQ=255)
aCATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCata > 1:3982914/1‑46 (MQ=255)
aCATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCa < 1:1991530/44‑1 (MQ=255)
aCATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCa < 1:2800889/44‑1 (MQ=255)
aCATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTg > 1:3103883/1‑49 (MQ=255)
aCATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTg > 1:1661717/1‑49 (MQ=255)
cATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTg > 1:2768747/1‑71 (MQ=255)
aTCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCa < 1:3491325/42‑1 (MQ=255)
aTCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGc < 1:5090975/71‑1 (MQ=255)
cgccgcCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCata > 1:1536825/1‑42 (MQ=255)
cgccgcCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCata > 1:1491933/1‑42 (MQ=255)
cgccgcCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCata > 1:4720874/1‑42 (MQ=255)
cgccgcCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCata > 1:2764681/1‑42 (MQ=255)
cgccgcCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCata > 1:3638466/1‑42 (MQ=255)
gctgccAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCAt > 1:2796622/4‑71 (MQ=255)
gccgccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCa > 1:2393787/1‑39 (MQ=255)
gccgccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCa > 1:3956571/1‑62 (MQ=255)
ctgccAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTCCCCAGCCTGCCATc < 1:1108008/69‑1 (MQ=255)
ccgccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATc < 1:4935187/71‑1 (MQ=255)
tgccAGCGTGACGATCATCCAGTGTTTTTGCTCACCAAACTGTTGGCGCTGCATTc < 1:4673168/55‑1 (MQ=255)
gccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGc > 1:4741654/1‑65 (MQ=255)
gccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGc > 1:2199633/1‑65 (MQ=255)
gccAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAg < 1:2306961/71‑1 (MQ=255)
gccAGCGTCACCAGCATCCAGTGTTTCTGTTAACCATATTGCTGGCGCTGAATTCCCCAGCCTGc > 1:100003/1‑65 (MQ=255)
aGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCAt > 1:3026975/1‑65 (MQ=255)
aGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCAt > 1:557917/1‑65 (MQ=255)
gCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAg < 1:4246466/67‑1 (MQ=255)
cGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATtg < 1:3602227/71‑1 (MQ=255)
cACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATtgtg > 1:88160/1‑70 (MQ=255)
aCCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGc > 1:5606113/1‑70 (MQ=255)
ccAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGa < 1:1211039/71‑1 (MQ=255)
cAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGAt > 1:4539136/1‑71 (MQ=255)
cAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGAt > 1:2999096/1‑71 (MQ=255)
cAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGAt > 1:97902/1‑71 (MQ=255)
|
ATAAGAGAAACCAAAACCGCCGCCCGGTGTACCAATCTGCCCTAACATCGCCGCCAGCGTCACCAGCATCCAGTGTTTCTGTTCACCATATTGCTGGCGCTGAATTCCCCAGCCTGCCATCAGCATTGTGCGAT > minE/1259757‑1259890
|
| 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
