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 |
347,999 |
C→T |
43.3% |
C99C (TGC→TGT) |
gcl → |
glyoxylate carboligase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 347,999 | 0 | C | T | 43.3%
| 15.6
/ 43.5
| 60 | C99C (TGC→TGT) | gcl | glyoxylate carboligase |
| Reads supporting (aligned to +/- strand): ref base C (14/20); new base T (3/23); total (17/43) |
| Fisher's exact test for biased strand distribution p-value = 1.94e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.31e-01 |
ATCACCGCGCTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTAGATATTGAAGC > minE/347952‑348064
|
aTCACCGCGCTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACcgcgc > 1:3434968/1‑69 (MQ=255)
aTCACCGCGCTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACcgcgc > 1:438927/1‑69 (MQ=255)
aTCACCGCGCTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACcgcgc > 1:1214744/1‑69 (MQ=255)
aTCACCGCGCTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACcgcgc > 1:1713358/1‑69 (MQ=255)
aTCACCGCGCTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACcgcgc > 1:862272/1‑69 (MQ=255)
aTCACCGCGCTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACcgcg > 1:2211181/1‑68 (MQ=255)
cctcgcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGccc > 1:3396630/4‑69 (MQ=255)
ccGCGCTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGccc > 1:2377840/1‑69 (MQ=255)
ccGCGCTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGccc > 1:154316/1‑69 (MQ=255)
gcTCTATTCCGCTTCTGCTTATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:944241/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCCTTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:423166/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:124529/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:3247222/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:3093895/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:2988314/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:2893938/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:374101/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:2539067/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:2429663/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:1175342/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:1190560/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:2210789/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:3303594/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:664198/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:89245/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:1634391/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:713137/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:1328911/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:516107/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:526654/69‑1 (MQ=255)
gcTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGTATTACCGGCCAGGCTCCGCGCGCCCGTCt < 1:1863059/69‑1 (MQ=255)
ctctATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTg < 1:2336178/69‑1 (MQ=255)
ctctATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTg < 1:2545438/69‑1 (MQ=255)
ccGCTTCTGCTGATTCCATTCCTATTCTGTGCATTACCGGCCAGGAACCGCGCGCCCGTCTGCATa > 1:2143714/1‑66 (MQ=255)
tgctgATTCCATTCCTATTCTGTGTATTACCGGCCAGGCGCCGCGCGCCCGTCt < 1:2297590/54‑1 (MQ=255)
gctgATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGAtt < 1:1845665/67‑1 (MQ=255)
gctgATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGAtt < 1:1860908/67‑1 (MQ=255)
gctgATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGAtt < 1:1354799/67‑1 (MQ=255)
gctgATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGAtt < 1:1612403/67‑1 (MQ=255)
gctgATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGAtt < 1:137277/67‑1 (MQ=255)
gATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCa > 1:2563352/1‑68 (MQ=255)
gATTCCATTCCTATTCTGAGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAg > 1:234339/1‑69 (MQ=255)
ttccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGttg < 1:1106460/69‑3 (MQ=255)
ttccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTa < 1:1063216/68‑1 (MQ=255)
ttccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTa < 1:44659/68‑1 (MQ=255)
ttccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTa < 1:891655/68‑1 (MQ=255)
ttccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTa < 1:3324377/68‑1 (MQ=255)
ttccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTa < 1:2757462/68‑1 (MQ=255)
ttccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTa < 1:2404720/68‑1 (MQ=255)
ttccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTa < 1:163518/68‑1 (MQ=255)
ttccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTa < 1:1402606/68‑1 (MQ=255)
ttccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTAg < 1:1813881/69‑1 (MQ=255)
ttccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTAg < 1:18005/69‑1 (MQ=255)
tccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTAGa < 1:1413261/69‑1 (MQ=255)
ccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTAGat > 1:3186685/1‑69 (MQ=255)
ccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTAGat > 1:21366/1‑69 (MQ=255)
ccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTAGat > 1:1624777/1‑69 (MQ=255)
ccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTAGat > 1:928712/1‑69 (MQ=255)
ccTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTAGat > 1:1022427/1‑69 (MQ=255)
aTTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTAGatat < 1:2337584/68‑1 (MQ=255)
cATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTAGATATTGAAGc < 1:2009676/66‑1 (MQ=255)
|
ATCACCGCGCTCTATTCCGCTTCTGCTGATTCCATTCCTATTCTGTGCATTACCGGCCAGGCACCGCGCGCCCGTCTGCATAAAGAAGATTTTCAGGCCGTAGATATTGAAGC > minE/347952‑348064
|
| 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
