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 |
2,508,937 |
T→C |
52.0% |
T667T (ACT→ACC) |
yicI → |
predicted alpha‑glucosidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,508,937 | 0 | T | C | 52.0%
| 0.3
/ 43.6
| 52 | T667T (ACT→ACC) | yicI | predicted alpha‑glucosidase |
| Reads supporting (aligned to +/- strand): ref base T (13/12); new base C (16/11); total (29/23) |
| Fisher's exact test for biased strand distribution p-value = 7.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.70e-01 |
AGTCGCTGGCATAAACAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACACTCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCACGGCATTCC > minE/2508875‑2509001
|
aGTCGCTGGCATAAACAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACActc < 1:1443447/64‑1 (MQ=255)
aGTCGCTGGCATAAACAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACActc < 1:2326014/64‑1 (MQ=255)
aGTCGCTGGCATAAACAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACActc < 1:2385026/64‑1 (MQ=255)
aGTCGCTGGCATAAACAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACActc < 1:320757/64‑1 (MQ=255)
aGTCGCTGGCATAAACAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACActc < 1:1201576/64‑1 (MQ=255)
aGTCGCTGGCATAAACAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACActc < 1:785311/64‑1 (MQ=255)
aGTCGCTGGCATAAACAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACActc < 1:712987/64‑1 (MQ=255)
aGTCGCTGGCATAAACAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACACTCTACTg > 1:3104251/1‑69 (MQ=255)
cGCTGGCATAAACAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACACTCTACTGgcg < 1:1433163/69‑1 (MQ=255)
gCTGGCATAAACAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACACTCTACTGgcg < 1:3197401/68‑1 (MQ=255)
aaaCAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACACTCTACTGGCGCTGGGcaac < 1:2038430/69‑1 (MQ=255)
aaCAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACACTCTACTGGCGCTGGGcatca > 1:1377159/1‑69 (MQ=255)
caCGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACACTCTACTGGCGCTGGGCAACAACGATCaa < 1:1988900/69‑1 (MQ=255)
caCGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACACTCTACTGGCGCTGGGCAACAACGATCaa < 1:1307918/69‑1 (MQ=255)
caCGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACACTCTACTGGCGCTGGGCAACAACGATCaa < 1:197266/69‑1 (MQ=255)
caCGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACACTCTACTGGCGCTGGGCAACAACGATCaa < 1:2614564/69‑1 (MQ=255)
caCGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACACTCTACTGGCGCTGGGCAACAACGATCaa < 1:2799362/69‑1 (MQ=255)
ttCCTGAGTCTGCCCGTTTATGTGCGTGATAACACTCTACTGGCGCTGGGCAACAACGATCAACGTccc < 1:3216161/69‑1 (MQ=255)
tttATGTGCGTGATAACACTCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACg < 1:3223602/69‑1 (MQ=255)
tATGTGCGTGATAACACTCTACTGGCGCTGGGcaac < 1:131984/36‑1 (MQ=255)
cGTGATAACACTCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCAc < 1:1483466/68‑1 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa < 1:2614555/69‑1 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:732050/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:3198155/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:2566665/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:2821630/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:3069357/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:615236/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa < 1:107203/69‑1 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa < 1:418241/69‑1 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:481158/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa < 1:484044/69‑1 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:1822817/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa < 1:1245171/69‑1 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:1313341/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:1352632/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:1442416/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:1235955/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa < 1:1205169/69‑1 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa < 1:186877/69‑1 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:1072849/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:2173725/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa > 1:2204001/1‑69 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa < 1:2220210/69‑1 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa < 1:1055499/69‑1 (MQ=255)
gATAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATAACGCGTGGCACGAAGGTACGGCa > 1:640421/1‑69 (MQ=255)
aTAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa < 1:1182204/68‑1 (MQ=255)
aTAGCACCCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGCGTGGCACGAAGGTACGGCa < 1:2639065/68‑1 (MQ=255)
aTAACACTCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCACGGc > 1:1623720/1‑67 (MQ=255)
acacTCTAGTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCACGGCATTcc > 1:2318597/1‑69 (MQ=255)
acacTCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCa > 1:3137831/1‑60 (MQ=255)
acacTCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCACGGCATTcc > 1:3259043/1‑69 (MQ=255)
acacTCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCACGGCATTcc > 1:1571830/1‑69 (MQ=255)
acacTCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCACGGCATTcc > 1:3072350/1‑69 (MQ=255)
acacTCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCACGGCATTcc > 1:1101852/1‑69 (MQ=255)
acacTCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCACGGCATTcc > 1:1944094/1‑69 (MQ=255)
acacTCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCACGGCATTcc > 1:740447/1‑69 (MQ=255)
acacTCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCACGGCATTcc > 1:2325762/1‑69 (MQ=255)
acacTCTACTGGCGCTGGGAAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCACGGCATTcc > 1:3148172/1‑69 (MQ=255)
|
AGTCGCTGGCATAAACAGCAGCACGGCTTCCTGAGTCTGCCCGTTTATGTGCGTGATAACACTCTACTGGCGCTGGGCAACAACGATCAACGTCCCGATTACGTGTGGCACGAAGGCACGGCATTCC > minE/2508875‑2509001
|
| 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
