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 |
1,000,186 |
G→A |
43.6% |
G179D (GGT→GAT) |
ydgD → |
predicted peptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,000,186 | 0 | G | A | 43.6%
| 16.1
/ 47.0
| 39 | G179D (GGT→GAT) | ydgD | predicted peptidase |
| Reads supporting (aligned to +/- strand): ref base G (11/11); new base A (8/9); total (19/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
TACGCCGTTGCCGTTATTTGAGGGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTGTACAGTCATCAAAACTGTG > minE/1000124‑1000254
|
tACGCCGTTGCCGTTATTTGAGGGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGATCGTAAAg > 1:1270537/1‑71 (MQ=255)
aCGCCGTTGCCGTTATTTGAGGGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGATCGTAAAGt > 1:243246/1‑71 (MQ=255)
aCGCCGTTGCCGTTATTTGAGGGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGATCGTAAAGt > 1:1186220/1‑71 (MQ=255)
cGCCGTTGCCGTTATTTGAGGGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGGTCGTAAAGt > 1:1046773/1‑70 (MQ=255)
cGCCGTTGCCGTTATTTGAGGGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGATCGTAAAGt < 1:967119/70‑1 (MQ=255)
cGCCGTTGCCGTTATTTGAGGGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGATCGTAAAGt < 1:12396/70‑1 (MQ=255)
cgttgccgttATTTGAGGGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGGTCGt > 1:447974/1‑62 (MQ=255)
gccgttATTTGAGGGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGGTCGTAAAGTGACTcagg > 1:1919279/1‑71 (MQ=255)
gccgttATTTGAGGGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGGTCGTAAAGTGACTcagg > 1:150109/1‑71 (MQ=255)
cgttATTTGAGGGAGATAAAGCCGCACTTACCGCCGCATTAAAAGCGGCAGGTCGTAAAGTGACTcagg < 1:696163/69‑1 (MQ=255)
aTTTGAGGGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGATCGTaaa > 1:710732/1‑55 (MQ=255)
tttGAGGGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGATCGTAAAGTGACTCAGGCAGGCt < 1:1692717/70‑1 (MQ=255)
gggAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTg < 1:2197076/71‑1 (MQ=255)
aTAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGATCGTAAAGTGACTCAGGCAGGCTACCCTg < 1:1142170/66‑1 (MQ=255)
aTAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGATCGTAAAGTGACTCAGGCAGGCTACCCTg < 1:873216/66‑1 (MQ=255)
aTAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGATCGTAAAGTGACTCAGGCAGGCTACCCTg < 1:1139666/66‑1 (MQ=255)
aTAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGATCGTAAAGTGACTCAGGCAGGCTACCCTGAAGa < 1:76860/70‑1 (MQ=255)
tAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGGTCGTa < 1:625698/41‑1 (MQ=255)
aaGCCGCGCTTACCGCCGCATTAAAAGCGGCAGATCGt > 1:443191/1‑38 (MQ=255)
tACCGCCGCATTAAAAGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGt > 1:1408210/1‑71 (MQ=255)
aCCGCCGCATTAAAAGCGGCAGATCGTAAAGTGACTCAGGCAGGCTACCCTGAAGatcatc > 1:937225/1‑61 (MQ=255)
cgcATTAAAAGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTGTACa < 1:1308357/71‑1 (MQ=255)
ttAAAAGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCAtctc < 1:1258127/54‑1 (MQ=255)
ttAAAAGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCAtctc < 1:693027/54‑1 (MQ=255)
ttAAAAGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCAtctc < 1:513329/54‑1 (MQ=255)
ttAAAAGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCAtctc < 1:350799/54‑1 (MQ=255)
ttAAAAGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGt < 1:841917/61‑1 (MQ=255)
tAAAAGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTGTACAGtcat > 1:2048686/1‑71 (MQ=255)
tAAAAGCGGCAGATCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTGTACAGtcat > 1:1841889/1‑71 (MQ=255)
aaaaGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGa > 1:1129324/1‑45 (MQ=255)
aaaaGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTg > 1:1130554/1‑61 (MQ=255)
aaaaGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTGTACAGtcat > 1:1063910/1‑70 (MQ=255)
aaaaGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTGTACAGtc > 1:1670967/1‑68 (MQ=255)
aaaGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTGTACAGtcatc < 1:1305553/70‑1 (MQ=255)
aaaGCGGCAGATCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTGTACAGtcat > 1:1823916/1‑69 (MQ=255)
aaGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTGTACAGTCATCaa < 1:614382/71‑1 (MQ=255)
aaGCGGCAGATCGTAAAGTGACTCAGGCAGGCTAcc < 1:320041/36‑1 (MQ=255)
aaGCGGCAGATCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTGTACAGTCATCaa < 1:1981377/71‑1 (MQ=255)
aGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTGTAc > 1:1055433/1‑61 (MQ=255)
gTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACg < 1:834900/47‑1 (MQ=255)
gTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACg < 1:26686/47‑1 (MQ=255)
gTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACg < 1:174296/47‑1 (MQ=255)
gTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTGTACAGTCATCAAAACtgtg > 1:1783845/1‑69 (MQ=255)
|
TACGCCGTTGCCGTTATTTGAGGGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGATCATCTCGATACGTTGTACAGTCATCAAAACTGTG > minE/1000124‑1000254
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
