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 |
|
A1 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,635,047 |
G→A |
25.0% |
A53V (GCG→GTG) |
yjjK ← |
fused predicted transporter subunits and ATP‑binding components of ABC superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,635,047 | 0 | G | A | 25.0%
| 78.4
/ 25.2
| 44 | A53V (GCG→GTG) | yjjK | fused predicted transporter subunits and ATP‑binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base G (19/14); new base A (9/2); total (28/16) |
| Fisher's exact test for biased strand distribution p-value = 2.78e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01 |
CGGCAGATAACCAATCTTGATGTCTGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAGGACACCAATTTTTGCCCCA > W3110S.gb/4634980‑4635112
|
cGGCAGATAACCAATCTTGATGTCTGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCGCCa > 1:2483553/1‑71 (MQ=255)
ggCAGATAACCAATCTTGATGTCTGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCGCCAt < 1:2815663/71‑1 (MQ=255)
ggCAGATAACCAATCTTGATGTCTGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCACCAt < 1:2089191/71‑1 (MQ=255)
aTAACCAATCTTGATGTCTGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCGCCATAATgc > 1:1645618/1‑71 (MQ=255)
ccAATCTTGATGTCTGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCGCCATaa > 1:2857664/1‑64 (MQ=255)
ccAATCTTGATGTCTGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCGCCATaa > 1:3625379/1‑64 (MQ=255)
cTTGATGTCTGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCGCCATAATGCGCAGCAggg > 1:1670870/1‑71 (MQ=255)
ttGATGTCTGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCGCCATAATGCGCAGCAggg > 1:3906783/1‑70 (MQ=255)
gATGTCTGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTg > 1:4219838/1‑70 (MQ=255)
tGTCTGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGGa < 1:790540/70‑1 (MQ=255)
tCTGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGGACtt < 1:4147070/71‑1 (MQ=255)
tGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTAc > 1:156191/1‑71 (MQ=255)
cTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGACCGCCATAATGCGCAGCAGGGTGGACTTACCcg > 1:1468932/1‑71 (MQ=255)
cGGACGCGCTTCACCTTCGATGTCTTTATCAATGGCCGCCATAATGCGCAGCAggg > 1:3602158/1‑56 (MQ=255)
gACGCGCTTCACCTTCGATGTCTTTATCAATGCCCACCATAATGCGCAGCAGGGTGGACTTACCCGCGCCa > 1:4271186/1‑71 (MQ=255)
cgcgCTTCACCTTCGATGTCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGTACTTACCCGCGCCAtt < 1:1616207/71‑1 (MQ=255)
cgcgCTTCACCTTCGATGTCTTTATCAATGCCCACCATAATGCGCAGCAGGGTGGACTTACCCGCGCCAtt > 1:1769978/1‑71 (MQ=255)
gcgcTTCACCTTCGATGTCTTTATCAATGCCCGCCa < 1:2142280/36‑1 (MQ=255)
gcgcTTCACCTTCGATGTCTTTATCAATGCCCACCATAATGCGCAGCAGGGTGGACTTACCCGCGCCAtt > 1:4539300/1‑70 (MQ=255)
gcTTCACCTTCGATGTCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAg < 1:3187847/71‑1 (MQ=255)
tCACCTTCGATGTCTTTATCAATGCCCGCCATAATGCGcagcag > 1:2323582/1‑44 (MQ=255)
tCACCTTCGATGTCTTTATCAATGCCCACCATAATGCGcagcag > 1:3280258/1‑44 (MQ=255)
ccTTCGATGTCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAg < 1:2745489/71‑1 (MQ=255)
ccTTCGATGTCTTTATCAATGCCCACCATAATgcg < 1:3139122/35‑1 (MQ=255)
ccTTCGATGTCTTTATCAATGCCCACCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCa > 1:1815502/1‑64 (MQ=255)
ttCGATGTCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAGGa > 1:17623/1‑71 (MQ=255)
ttCGATGTCTTTATCAATGCCCACCATAATGCGcagcag > 1:3805320/1‑39 (MQ=255)
ttCGATGTCTTTATCAATGCCCACCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCa > 1:1101857/1‑68 (MQ=255)
tCGATGTCTTTATCAATGCCCGCCATAATGCGcagcag < 1:3364763/38‑1 (MQ=255)
tCGATGTCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAGGa > 1:4469405/1‑70 (MQ=255)
cGATGTCTTTATCAATGCCCACCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAGGaca > 1:403298/1‑71 (MQ=255)
cGATGTCTTTATCAATGCCCACCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAGGaca > 1:3411522/1‑71 (MQ=255)
gTCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAg > 1:4072836/1‑63 (MQ=255)
tCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGGAc > 1:4246663/1‑39 (MQ=255)
tCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAGGACACCAAt < 1:2739225/71‑1 (MQ=255)
tCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAGGACACCAAt < 1:3197969/71‑1 (MQ=255)
ttATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAg < 1:162730/59‑1 (MQ=255)
tATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCGGCGCCATTCAGACCCAGGACACCAAttttt > 1:4628775/1‑71 (MQ=255)
tATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAGGACACCAAttttt > 1:873593/1‑71 (MQ=255)
tATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAGGACACCAAtt < 1:4488424/68‑1 (MQ=255)
tCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAGGACACCAATTTTTg < 1:2203455/70‑1 (MQ=255)
tGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAGGACACCAATTTTTGCCCCa < 1:3155234/71‑1 (MQ=255)
cccGCCATAATGCGCAGCAGGGTGGACTTACCCgcgc > 1:3477852/1‑37 (MQ=255)
cccGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGAc > 1:2371063/1‑46 (MQ=255)
|
CGGCAGATAACCAATCTTGATGTCTGGCTGCGGACGCGCTTCACCTTCGATGTCTTTATCAATGCCCGCCATAATGCGCAGCAGGGTGGACTTACCCGCGCCATTCAGACCCAGGACACCAATTTTTGCCCCA > W3110S.gb/4634980‑4635112
|
| 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
