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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,493,676 |
T→C |
24.6% |
intergenic (+58/‑317) |
gyrB → / → ibpA |
DNA gyrase, subunit B/heat shock chaperone |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,493,676 | 0 | T | C | 24.6%
| 117.6
/ 32.5
| 57 | intergenic (+58/‑317) | gyrB/ibpA | DNA gyrase, subunit B/heat shock chaperone |
| Reads supporting (aligned to +/- strand): ref base T (16/27); new base C (6/8); total (22/35) |
| Fisher's exact test for biased strand distribution p-value = 7.58e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.63e-01 |
TATCGATATTTAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTA > minE/2493606‑2493746
|
tatCGATATTTAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCt > 1:2587836/1‑71 (MQ=255)
tatCGATATTTAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCt < 1:3694531/71‑1 (MQ=255)
tCGATATTTAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCtt < 1:3356194/70‑1 (MQ=255)
gATATTTAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCa < 1:3012516/71‑1 (MQ=255)
tttAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAAt < 1:2921712/69‑1 (MQ=255)
tAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTa < 1:359626/70‑1 (MQ=255)
gcTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGc < 1:3775165/57‑1 (MQ=255)
gcTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAAttt < 1:2201371/71‑1 (MQ=255)
gCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTg > 1:177543/1‑69 (MQ=255)
gCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTa < 1:928018/71‑1 (MQ=255)
aatGCCTGATGCGCTCCGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAg > 1:2701367/3‑71 (MQ=14)
atGCCTGATGCGCTCCGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAgg < 1:1678206/70‑1 (MQ=14)
tGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGaa > 1:2386982/1‑52 (MQ=255)
tGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGaa > 1:6608/1‑52 (MQ=255)
gCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCtt > 1:2278556/1‑38 (MQ=255)
ccTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCg > 1:741336/1‑71 (MQ=255)
cTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAAtttt < 1:1089963/53‑1 (MQ=255)
cTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCg > 1:229203/1‑70 (MQ=255)
gATGCGCTCCGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGa > 1:277434/1‑70 (MQ=14)
aTGCGCTCCGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGAt < 1:1366568/70‑1 (MQ=14)
aTGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGAt > 1:1751399/1‑70 (MQ=255)
aTGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGAt < 1:1127597/70‑1 (MQ=255)
tGCGCTCCGCTTATCAGGCCTACGAAAATTCTGCAGTGTATTGAATTTGCACGATTTTGTAGGCCGGAt > 1:3531496/1‑69 (MQ=14)
tGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGAt > 1:3830590/1‑69 (MQ=255)
cgcTCCGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGATAAg < 1:1473834/70‑1 (MQ=14)
cgcTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAAttt < 1:318566/46‑1 (MQ=255)
cgcTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAAttt < 1:3251488/46‑1 (MQ=255)
cgcTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAgg < 1:1981069/71‑1 (MQ=255)
gcTCCGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAAtttg < 1:2458354/46‑2 (MQ=14)
gcTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGAtttt < 1:2128235/55‑1 (MQ=255)
gcTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTg > 1:2761066/1‑56 (MQ=255)
cTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGAt < 1:1559875/51‑1 (MQ=255)
cTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGAt < 1:2565870/51‑1 (MQ=255)
cTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGAt < 1:1709508/51‑1 (MQ=255)
cTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCg < 1:3240778/62‑1 (MQ=255)
tACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGt > 1:1674431/1‑71 (MQ=255)
cGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGa < 1:632998/37‑1 (MQ=17)
cGCTTATCAGGCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGATAAGGCGtt > 1:981727/1‑70 (MQ=14)
cTTATCAGGCCTACGAAAATTCTGCAATGTATTGa > 1:3149691/1‑35 (MQ=14)
cTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCAc < 1:3193602/71‑1 (MQ=255)
tATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTg < 1:354434/48‑1 (MQ=255)
tATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCAcgc > 1:3533810/1‑71 (MQ=255)
tCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTa > 1:1000507/1‑48 (MQ=255)
ggCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGATAAGGCGTTAACGCCGCAt < 1:1782256/71‑1 (MQ=14)
ggCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCAt < 1:3135301/71‑1 (MQ=255)
ggCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCAt > 1:3576027/1‑71 (MQ=255)
gCCTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGATAAGGCGTTAACGCCGCATc < 1:3501910/71‑1 (MQ=11)
gCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATc < 1:1685497/71‑1 (MQ=255)
gCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTAACGCCGCATc < 1:893433/71‑1 (MQ=255)
ccTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTAGGCCGGATAAGGCGTTAACGCCGCATcc < 1:1653805/71‑1 (MQ=11)
cTACGAAAATTCTGCAATGTATTGAATTTGCACGATTTTGTa > 1:3602198/1‑42 (MQ=14)
tACGAAAATCTTGCAATGTATTGAATTTTCATGAtttt < 1:258896/38‑1 (MQ=255)
aCGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCgg > 1:3912605/1‑70 (MQ=255)
gAAAATCTTGCAATGTATTGAATTTTCATGATTTTg < 1:989866/36‑1 (MQ=255)
gAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATaa < 1:3297536/48‑1 (MQ=255)
gAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCaa < 1:1248346/71‑1 (MQ=255)
aaaTCTTGCAATGTATTGAATTTTCATGATTTTGTa > 1:1134761/1‑36 (MQ=255)
aaaTCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCaag < 1:1423851/70‑1 (MQ=255)
aaTCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATa < 1:3883058/44‑1 (MQ=255)
aTCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCaagaag > 1:1047723/1‑71 (MQ=255)
tCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGc > 1:1307273/1‑71 (MQ=255)
ttGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCta > 1:1279665/1‑71 (MQ=255)
ttGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCt > 1:1898855/1‑70 (MQ=255)
|
TATCGATATTTAATGGCGCTAACCATGCGAGCGTGCCTGATGCGCTACGCTTATCAGGCCTACGAAAATCTTGCAATGTATTGAATTTTCATGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAGAAGCTA > minE/2493606‑2493746
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
