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 |
1,746,998 |
G→A |
12.5% |
intergenic (+82/+127) |
srmB → / ← yfiE |
ATP‑dependent RNA helicase/predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,746,998 | 0 | G | A | 12.5%
| 135.5
/ 8.4
| 48 | intergenic (+82/+127) | srmB/yfiE | ATP‑dependent RNA helicase/predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base G (19/23); new base A (2/4); total (21/27) |
| Fisher's exact test for biased strand distribution p-value = 6.83e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.76e-01 |
GGTTTAAGCCTGGTATTAAAAGTGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAT > minE/1746928‑1747068
|
ggTTTAAGCCTGGTATTAAAAGTGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACg > 1:3622478/1‑71 (MQ=255)
ggTTTAAGCCTGGTATTAAAAGTGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACg > 1:1633053/1‑71 (MQ=255)
tAAGCCTGGTATTAAAAGTGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTgg < 1:2071561/70‑1 (MQ=255)
tAAGCCTGGTATTAAAAGTGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTgg < 1:1888175/70‑1 (MQ=255)
tAAGCCTGGTATTAAAAGTGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTgg < 1:2834317/70‑1 (MQ=255)
aGCCTGGTATTAAAAGTGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTc < 1:3535206/71‑1 (MQ=255)
aaaaGTGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAatatat > 1:867269/1‑71 (MQ=255)
aaaaGTGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAatata < 1:3585763/70‑1 (MQ=255)
aaGTGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATAtt < 1:1563487/70‑1 (MQ=255)
tGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAAt < 1:1155244/71‑1 (MQ=255)
tGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAAt < 1:939325/71‑1 (MQ=255)
tGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAAt < 1:1644582/71‑1 (MQ=255)
tGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAAttt < 1:2879748/70‑1 (MQ=255)
gCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCa < 1:3253647/55‑1 (MQ=255)
gCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAAt < 1:959292/66‑1 (MQ=255)
gCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCa > 1:104539/1‑71 (MQ=255)
gCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCa > 1:2771160/1‑71 (MQ=255)
aaaCGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAAttt > 1:2139686/1‑66 (MQ=255)
aCGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGc < 1:284063/44‑1 (MQ=32)
aCGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAatatat > 1:1611487/1‑57 (MQ=255)
cAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGaa > 1:752795/1‑58 (MQ=255)
cAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGaa > 1:3935573/1‑58 (MQ=255)
cAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCtt < 1:1695829/71‑1 (MQ=255)
aaCTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCAc > 1:2865907/1‑62 (MQ=255)
aaCTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTg > 1:2462775/1‑69 (MQ=255)
cTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTg < 1:3750802/67‑1 (MQ=255)
ccTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCg > 1:917321/1‑71 (MQ=255)
ccTGATGCGCTACGCTTATCAGGCCTACATGGCCCATGCAATGTATTGAATTTGCACGCTTTTGTAGGCCg < 1:3936422/71‑1 (MQ=14)
cTGATGCGCTACGCTTATCAGGCCTACATGGCCCATGCAATGTATTGAATTTGCACGCTTTTGTAGGCCgg < 1:3887687/71‑1 (MQ=14)
tGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGa > 1:2348084/1‑71 (MQ=255)
gATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAatata < 1:3145273/42‑1 (MQ=255)
gATGCGCTACGCTTATCAGGCCTACATGGCCCATGCaa > 1:2562083/1‑38 (MQ=14)
aTGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAat > 1:2899883/1‑38 (MQ=255)
aTGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGAt > 1:1146702/1‑56 (MQ=255)
aTGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGAt > 1:3522759/1‑56 (MQ=255)
tGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGATa < 1:814088/70‑1 (MQ=255)
tACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGATAAGGCGt > 1:2223844/1‑71 (MQ=255)
cGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGATAAGGCGTTc < 1:1468605/71‑1 (MQ=255)
cGCTTATCAGGCCTACATGGCCCATGCAATGTATTGAATTTGCACGCTTTTGTAGGCCGGATAAGGCGttt < 1:483224/71‑2 (MQ=11)
cGCTTATCAGGCCTACATGGCCCATGCAATGTATTGAATTTGCACGCTTTTGTAGGCCGGATAAGGCGtt < 1:1844694/70‑1 (MQ=14)
cTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGATAAGGCGTTCAc < 1:1381199/71‑1 (MQ=255)
ttATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGATAAGGCGTTCAcg > 1:41877/1‑71 (MQ=255)
aTCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGATAAGGCGTTCAcg < 1:806968/69‑1 (MQ=255)
aGGCCTACGTGGCTCATGCAATATATTGAATTTGCa > 1:3247176/1‑36 (MQ=255)
aGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGATAAGGCGTTCAcgccgc < 1:2306152/70‑1 (MQ=255)
ccTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGATAAGGc < 1:1517023/56‑1 (MQ=255)
cTACATGGCCCATGCAATGTATTGAATTTGCACGCTTTTGTAGGCCGGATAAGGCGtt > 1:746952/1‑58 (MQ=11)
aCGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTa > 1:1853025/1‑40 (MQ=255)
aCGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGa > 1:3157007/1‑47 (MQ=255)
cGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCa < 1:1191098/71‑1 (MQ=255)
gTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAt > 1:1880728/1‑71 (MQ=255)
|
GGTTTAAGCCTGGTATTAAAAGTGCTGGCAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGCTCATGCAATATATTGAATTTGCACGATCTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAT > minE/1746928‑1747068
|
| 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
