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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
297,667 |
C→T |
26.7% |
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 | 26.7%
| 75.6
/ 28.8
| 45 | R110C (CGT→TGT) | mdlA | fused predicted multidrug transporter subunits and ATP‑binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base C (17/16); new base T (7/5); total (24/21) |
| Fisher's exact test for biased strand distribution p-value = 7.46e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.68e-01 |
TCAACTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTGCCGCCGGAG > minE/297597‑297736
|
tCAACTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGc < 1:725832/71‑1 (MQ=255)
aaCTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGATTTACCTgtgt < 1:357714/71‑1 (MQ=255)
cTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCa < 1:122450/71‑1 (MQ=255)
cTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGc < 1:1517844/71‑1 (MQ=255)
cTGTTGAACTGCGCGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGc < 1:1464616/71‑1 (MQ=255)
tGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGc > 1:1279486/1‑70 (MQ=255)
gTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTc < 1:412087/71‑1 (MQ=255)
gTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTc < 1:2112048/71‑1 (MQ=255)
gTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTc < 1:1755810/71‑1 (MQ=255)
aaGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATg > 1:2073490/1‑71 (MQ=255)
aGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATgg > 1:2171321/1‑71 (MQ=255)
aGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATgg > 1:1484429/1‑71 (MQ=255)
tattaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCg > 1:530903/1‑71 (MQ=255)
attaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGt > 1:984176/1‑71 (MQ=255)
ttaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCa < 1:393442/45‑1 (MQ=255)
aCCGTCAGCTAAGCCGTCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGc > 1:1703250/1‑70 (MQ=255)
aCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGc < 1:1714432/70‑1 (MQ=255)
ccGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCg < 1:481373/70‑1 (MQ=255)
aGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAAt > 1:1569497/1‑71 (MQ=255)
aGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCCCCGGTGACCTc > 1:1349064/1‑53 (MQ=255)
aGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCa > 1:753769/1‑54 (MQ=255)
aGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAAt < 1:1461208/71‑1 (MQ=255)
aGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAAt < 1:1139932/71‑1 (MQ=255)
cTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCt < 1:1357072/50‑1 (MQ=255)
cTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCt < 1:1217780/50‑1 (MQ=255)
cTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCt < 1:1327576/50‑1 (MQ=255)
tAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATg > 1:2213514/1‑69 (MQ=255)
aaGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACg > 1:113958/1‑71 (MQ=255)
aaGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCaa > 1:730576/1‑66 (MQ=255)
ccGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCg < 1:1900166/71‑1 (MQ=255)
cGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCg < 1:2209705/70‑1 (MQ=255)
agcaTCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATcgc > 1:767033/1‑71 (MQ=255)
agcaTCCTGAGTTTTACCTGCGTCATCGCACCGGTgc > 1:1832428/1‑36 (MQ=255)
agcaTCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATcgc > 1:1040845/1‑71 (MQ=255)
cTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATGGCGTCgtg > 1:1133366/1‑71 (MQ=255)
cTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCgtg > 1:480308/1‑71 (MQ=255)
gAGTTTTACCTGTGTCATCGCACAGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGtt > 1:1216767/1‑71 (MQ=255)
gAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGtt > 1:1342204/1‑71 (MQ=255)
aGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCgtgt < 1:343587/69‑1 (MQ=255)
aGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGttt > 1:1428988/1‑71 (MQ=255)
aGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCgtgt < 1:2048310/69‑1 (MQ=255)
aGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCgtgt < 1:1743837/69‑1 (MQ=255)
aGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGttt > 1:832041/1‑71 (MQ=255)
ttttACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGcgtcgt < 1:186275/65‑1 (MQ=255)
ttttACCTGCGTCATCGCACCGGTGACCTCATGGATCGTGCGACCAATGACGTCGATCGCGTCGTGTTTgc > 1:1328617/1‑71 (MQ=255)
ttttACCTGCGTCATCGCACCGGTGACCTCATCGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTgc > 1:2005287/1‑71 (MQ=255)
ccTGCGTCATCGCACCGGTTACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTgccgc < 1:969847/69‑1 (MQ=255)
cGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTGCCGCCGgag < 1:1690423/70‑1 (MQ=255)
cGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTGCCGCCGgac < 1:1275967/70‑2 (MQ=255)
|
TCAACTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTGCCGCCGGAG > minE/297597‑297736
|
| 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
