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 |
|
A2 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
297,667 |
C→T |
15.8% |
R110C (CGT→TGT) |
mdlA → |
fused predicted multidrug transporter subunits and ATP‑binding components of ABC superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 297,667 | 0 | C | T | 15.8%
| 144.6
/ 17.9
| 57 | R110C (CGT→TGT) | mdlA | fused predicted multidrug transporter subunits and ATP‑binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base C (19/29); new base T (6/3); total (25/32) |
| Fisher's exact test for biased strand distribution p-value = 1.61e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.74e-01 |
AACTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTGCCGCC > minE/297599‑297732
|
aaCTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGt < 1:560159/71‑1 (MQ=255)
aCTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTc < 1:2196591/71‑1 (MQ=255)
aCTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTc < 1:486918/71‑1 (MQ=255)
aCTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTc < 1:3329687/71‑1 (MQ=255)
cTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCa < 1:1325912/71‑1 (MQ=255)
cTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCa < 1:3862720/71‑1 (MQ=255)
cTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCa < 1:146100/71‑1 (MQ=255)
cTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCa < 1:2584838/71‑1 (MQ=255)
cTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCa < 1:1957394/71‑1 (MQ=255)
gCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCAt < 1:2527946/69‑1 (MQ=255)
cTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTc < 1:1013974/66‑1 (MQ=255)
cTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGc < 1:2530256/71‑1 (MQ=255)
gTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCAc > 1:1094273/1‑71 (MQ=255)
gTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCAc > 1:901631/1‑71 (MQ=255)
gTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCAc > 1:2286773/1‑71 (MQ=255)
gTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCAc > 1:193534/1‑71 (MQ=255)
ttGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCAcc < 1:1926936/71‑1 (MQ=255)
ttGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCAcc < 1:3070388/71‑1 (MQ=255)
ttGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCAcc < 1:691202/71‑1 (MQ=255)
ttGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCAcc < 1:2844772/71‑1 (MQ=255)
tGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCg > 1:3845195/1‑71 (MQ=255)
tGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCg > 1:3519494/1‑71 (MQ=255)
tGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCg > 1:2532622/1‑71 (MQ=255)
gAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCgg > 1:3473139/1‑71 (MQ=255)
aaCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGt < 1:331015/71‑1 (MQ=255)
aaCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGt < 1:551212/71‑1 (MQ=255)
aaCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGt < 1:2905320/71‑1 (MQ=255)
aaCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGt < 1:1516770/71‑1 (MQ=255)
aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGt < 1:2777866/70‑1 (MQ=255)
cTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTg < 1:3062186/70‑1 (MQ=255)
aaGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATg > 1:3695406/1‑71 (MQ=255)
aGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAAt < 1:850028/71‑1 (MQ=255)
aGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAAt < 1:1951483/71‑1 (MQ=255)
cTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGa < 1:3539429/71‑1 (MQ=255)
gCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAAt < 1:3633436/65‑1 (MQ=255)
gcagcaTCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGAt > 1:1533423/1‑70 (MQ=255)
gcagcaTCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATc > 1:1473785/1‑71 (MQ=255)
atacTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGcgtc > 1:1677628/4‑71 (MQ=255)
aTCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCg > 1:2821918/1‑46 (MQ=255)
aTCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCg > 1:2213107/1‑46 (MQ=255)
aTCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCg > 1:1464008/1‑46 (MQ=255)
aTCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGcgtc > 1:2358287/1‑71 (MQ=255)
aTCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGcgtc > 1:1842132/1‑71 (MQ=255)
tCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGAc < 1:1447252/51‑1 (MQ=255)
tCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGAc < 1:1193009/51‑1 (MQ=255)
tCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGAc < 1:227928/51‑1 (MQ=255)
cTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATg > 1:1344157/1‑38 (MQ=255)
cTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGAt > 1:3699166/1‑62 (MQ=255)
cTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGAt > 1:539088/1‑62 (MQ=255)
cTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGAt > 1:1201554/1‑62 (MQ=255)
cTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGAt > 1:670170/1‑62 (MQ=255)
cTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCgtg > 1:700888/1‑71 (MQ=255)
cTGAGTTTTACATGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGAt > 1:1637804/1‑62 (MQ=255)
ttttACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGAcc < 1:3563669/45‑1 (MQ=255)
ttttACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGAcc < 1:3256329/45‑1 (MQ=255)
ttttACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGAcc < 1:2512436/45‑1 (MQ=255)
aCCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTgccgcc > 1:2017491/1‑71 (MQ=255)
|
AACTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTGCCGCC > minE/297599‑297732
|
| 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
