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 |
821,688 |
T→A |
21.0% |
intergenic (‑225/+229) |
ldrA ← / ← ldrC |
toxic polypeptide, small/toxic polypeptide, small |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 821,688 | 0 | T | A | 21.0%
| 127.6
/ 31.1
| 62 | intergenic (‑225/+229) | ldrA/ldrC | toxic polypeptide, small/toxic polypeptide, small |
| Reads supporting (aligned to +/- strand): ref base T (19/30); new base A (4/9); total (23/39) |
| Fisher's exact test for biased strand distribution p-value = 7.51e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01 |
CACCAGGGATAAAGCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAAC > minE/821621‑821752
|
caccaGGGATAAAGCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGtct < 1:3694624/70‑1 (MQ=255)
gggATAAAGCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTc < 1:3247632/71‑1 (MQ=255)
gggATAAAGCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTc < 1:1960772/71‑1 (MQ=255)
gATAAAGCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCAt > 1:3753573/1‑71 (MQ=255)
aTAAAGCCCCCGCAACATTGCGCCTCACCGGATAACGCCGGCTTGGTGTGGATACTACGACTCAATTCATc > 1:420335/1‑71 (MQ=11)
gCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATcttcac > 1:5298653/1‑71 (MQ=255)
ccGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATcttcactt < 1:5222463/69‑1 (MQ=255)
ccGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATctt < 1:5470837/64‑1 (MQ=255)
ccGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATctt < 1:357918/64‑1 (MQ=255)
cGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCAt > 1:851332/1‑71 (MQ=255)
cAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATcc > 1:1706426/1‑71 (MQ=255)
cAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATcc < 1:4355330/71‑1 (MQ=255)
aaCATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTAACTTCATccc < 1:2057318/71‑1 (MQ=255)
aCATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGTATACTACGt > 1:4644459/1‑46 (MQ=255)
cATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCt > 1:4058878/1‑70 (MQ=255)
cATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCt > 1:5251838/1‑70 (MQ=255)
cATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCt > 1:3173459/1‑70 (MQ=255)
aTTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCaa < 1:3422698/49‑1 (MQ=255)
gcCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGt < 1:1405894/71‑1 (MQ=255)
gcCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGt < 1:5009579/71‑1 (MQ=255)
aCCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGc < 1:5444792/70‑1 (MQ=255)
aCCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCa < 1:858252/71‑1 (MQ=255)
cGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCaa < 1:3770626/70‑1 (MQ=255)
cGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCaa < 1:2101632/70‑1 (MQ=255)
ggATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATa < 1:304988/71‑1 (MQ=255)
gATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGaa < 1:1160941/58‑1 (MQ=255)
gATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGaa < 1:1308997/58‑1 (MQ=255)
gATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGa < 1:5187130/57‑1 (MQ=255)
gATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGa < 1:233630/57‑1 (MQ=255)
gATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATa > 1:2825760/1‑70 (MQ=255)
tAATTCCGGCTTGGTGTGGATACTACGTCTCAAtt > 1:1965953/1‑35 (MQ=255)
tAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAAt > 1:2051320/1‑58 (MQ=255)
aTTCCGGCTTGGTGTGGATACTACGTCTCAATTCATcttcacttc < 1:2722744/45‑1 (MQ=255)
aTTCCGGCTTGGTGTGGATACTACGTCTCAATTCATcttcacttc < 1:1247612/45‑1 (MQ=255)
aTTCCGGCTTGGTGTGGATACTACGTCTCAATTCATcttcacttc < 1:147074/45‑1 (MQ=255)
aTTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAag < 1:2725243/69‑1 (MQ=255)
ttCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGttt < 1:1147776/59‑1 (MQ=40)
ttCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGttt < 1:3641226/59‑1 (MQ=40)
ttCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCaa < 1:4671516/63‑1 (MQ=39)
cGGCTTGGTGTGGATACTACGACTCAATTCATCTTCACTTCATCCCTGAAATGttt < 1:5044334/56‑1 (MQ=255)
gCTTGGTGTGGATACTACGACTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAAtg < 1:1363072/60‑2 (MQ=255)
tGGTGTGGATACTACGACTCAATTCATCTTCACTTCATCCCTGaaa > 1:2147106/1‑46 (MQ=255)
tGGTGTGGATACTACGACTCAATTCATCTTCACTTCATCCCTGaaa > 1:2633534/1‑46 (MQ=255)
ggTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCgg > 1:2642846/1‑71 (MQ=39)
tgtgGATACTACGACTCAATTCATCTTCACTTCATCCCTGa < 1:807495/41‑1 (MQ=255)
tgtgGATACTACGACTCAATTCATCTTCACTTCATCCCTGa < 1:4514396/41‑1 (MQ=255)
tgtgGATACTACGACTCAATTCATCTTCACTTCATCCCTGAAATGTTTGc < 1:2035275/50‑1 (MQ=255)
tgtgGATACTACGACTCAATTCATCTTCACTTCATCCCTGAAATGTTTGc < 1:3590591/50‑1 (MQ=255)
tgtgGATACTACGACTCAATTCATCTTCACTTCATCCCTGAAATGTTTGc < 1:5193936/50‑1 (MQ=255)
tgGATACTACGACTCAATTCATCTTCACTTCATCCCTGAAATg < 1:2183216/43‑1 (MQ=255)
gATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCtttt > 1:1104757/1‑70 (MQ=40)
gATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTc < 1:5258918/71‑1 (MQ=39)
gATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTc < 1:5623243/71‑1 (MQ=39)
gATACTACGACTCAATTCATCTTCACTTCATCCCTGAAATGt > 1:4679074/1‑42 (MQ=255)
tactacGTCTCAATTCATCTTCACTTCATCCCTGAAATGttt > 1:3600496/1‑42 (MQ=38)
tactacGTCTCAATTCATCTTCACTTCATCCCTGAAATGttt > 1:831210/1‑42 (MQ=38)
tactacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCaa > 1:3998554/1‑71 (MQ=39)
tactacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCaa > 1:3703521/1‑71 (MQ=39)
actacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCaa > 1:4528678/1‑70 (MQ=40)
ctacGTCTCAATTCATCTTCACTTCATCCCTGAAATGtt < 1:731949/39‑1 (MQ=40)
ctacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAAc < 1:1392233/70‑1 (MQ=40)
ctacGACTCAATTCATCTTCACTTCATCCCTGAAATGTTTGc < 1:1785173/42‑1 (MQ=255)
cGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTa > 1:4662579/1‑50 (MQ=255)
cGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTa > 1:359793/1‑50 (MQ=255)
|
CACCAGGGATAAAGCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAAC > minE/821621‑821752
|
| 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
