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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
870,646 |
G→A |
61.7% |
V215V (GTG→GTA) |
topA → |
DNA topoisomerase I, omega subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 870,646 | 0 | G | A | 61.7%
| 34.2
/ 47.5
| 73 | V215V (GTG→GTA) | topA | DNA topoisomerase I, omega subunit |
| Reads supporting (aligned to +/- strand): ref base G (13/15); new base A (35/10); total (48/25) |
| Fisher's exact test for biased strand distribution p-value = 1.05e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.83e-01 |
GCGGTTCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTGGTGAAGC > minE/870599‑870699
|
gCGGTTCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTc < 1:1384528/69‑1 (MQ=255)
gCGGTTCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTc < 1:279077/69‑1 (MQ=255)
gCGGTTCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTc < 1:1720075/69‑1 (MQ=255)
gCGGTTCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTc < 1:1644660/69‑1 (MQ=255)
gCGGTTCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTc < 1:1946407/69‑1 (MQ=255)
gCGGTTCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTc < 1:1473652/69‑1 (MQ=255)
gCGGTTCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTc < 1:1383579/69‑1 (MQ=255)
gCGGTTCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTc < 1:3362775/69‑1 (MQ=255)
gCGGTTCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTc < 1:818749/69‑1 (MQ=255)
gCGGTTCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTc < 1:2248125/69‑1 (MQ=255)
gCGGTCCTCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:2973917/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:2061901/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:2721921/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:2141379/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:2900636/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:2746982/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:2013208/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:2212614/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:1941321/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:1928502/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:2439265/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:2273898/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:1674564/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:293947/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:3217464/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:419613/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:810345/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:1065947/1‑69 (MQ=255)
gCGGTCCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTc > 1:868485/1‑69 (MQ=255)
cGGTTCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTc < 1:1082910/68‑1 (MQ=255)
tCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTg > 1:73851/1‑57 (MQ=255)
tCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGa > 1:3178806/1‑66 (MQ=255)
tCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGAt > 1:2768253/1‑67 (MQ=255)
tCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGAt > 1:1022194/1‑67 (MQ=255)
tCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGAt > 1:2943577/1‑67 (MQ=255)
tCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGAt > 1:822859/1‑67 (MQ=255)
tCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGAt > 1:257216/1‑67 (MQ=255)
tCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGAt > 1:2282286/1‑67 (MQ=255)
tCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGAt > 1:1531057/1‑67 (MQ=255)
tCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGAt > 1:1015844/1‑67 (MQ=255)
tCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGAt > 1:1363776/1‑67 (MQ=255)
tCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGAt > 1:1604688/1‑67 (MQ=255)
tCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGAt > 1:1667/1‑67 (MQ=255)
cGCCTTGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTggg < 1:1658122/58‑1 (MQ=255)
cGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTggg < 1:16983/58‑1 (MQ=255)
cGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTggg < 1:3200746/58‑1 (MQ=255)
cGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTggg < 1:1313768/58‑1 (MQ=255)
cGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTggg < 1:1689065/58‑1 (MQ=255)
cGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTggg < 1:2052639/58‑1 (MQ=255)
cGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTggg < 1:562392/58‑1 (MQ=255)
cGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTggg < 1:571883/58‑1 (MQ=255)
cGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTggg < 1:837272/58‑1 (MQ=255)
cGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTACCGGAAGAGTTCTggg < 1:2264359/58‑1 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTg > 1:1098617/1‑36 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:2248828/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:530133/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:1218787/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:1191876/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:401490/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:3203432/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:1589317/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:2966005/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:1639667/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:2101693/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:2639905/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:2572265/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:223423/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:2544859/1‑68 (MQ=255)
gcgtgaAATTAAAGCGTTCGTACCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTg > 1:2525558/1‑68 (MQ=255)
aTTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTGGTGAAGc < 1:3119992/68‑1 (MQ=255)
aTTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTGGTGAAGc < 1:590260/68‑1 (MQ=255)
aTTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTGGTGAAGc < 1:2601163/68‑1 (MQ=255)
aTTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTGGTGAAGc < 1:1103407/68‑1 (MQ=255)
|
GCGGTTCGCCTGGTGGTCGAGCGTGAGCGTGAAATTAAAGCGTTCGTGCCGGAAGAGTTCTGGGAAGTCGATGCCAGCACGACCACGCCATCTGGTGAAGC > minE/870599‑870699
|
| 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
