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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,179,532 |
T→C |
51.9% |
*328Q (TAA→CAA) |
ansA → |
cytoplasmic L‑asparaginase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,179,532 | 0 | T | C | 51.9%
| 2.5
/ 68.5
| 54 | *328Q (TAA→CAA) | ansA | cytoplasmic L‑asparaginase I |
| Reads supporting (aligned to +/- strand): ref base T (13/13); new base C (8/20); total (21/33) |
| Fisher's exact test for biased strand distribution p-value = 1.63e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
CGCTAACCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTCACATTACGTGACT > minE/1179464‑1179598
|
cGCTAACCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCaa < 1:2653063/71‑1 (MQ=255)
gCTAACCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGCGCCaaa < 1:12243/71‑1 (MQ=255)
gCTAACCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCaaa < 1:4842924/71‑1 (MQ=255)
cTAACCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCaaaa < 1:106570/71‑1 (MQ=255)
atcAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAAc < 1:2486513/67‑1 (MQ=255)
aCCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCt < 1:3792839/71‑1 (MQ=255)
ccAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTg > 1:898835/1‑71 (MQ=255)
ccAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTg > 1:2892605/1‑71 (MQ=255)
cAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCttc < 1:4496678/71‑3 (MQ=255)
cAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTgc > 1:3271803/1‑71 (MQ=255)
cAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTgc > 1:858623/1‑71 (MQ=255)
aaCTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTgcgc < 1:44065/71‑1 (MQ=255)
aCTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGcgcg > 1:1460595/1‑71 (MQ=255)
gCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCgcggc > 1:5178588/1‑70 (MQ=255)
cATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCgcggcg < 1:2140221/70‑1 (MQ=255)
cATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCgcggcg < 1:4744465/70‑1 (MQ=255)
aTTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCaaa < 1:165190/57‑1 (MQ=255)
aTTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCaaa < 1:3727288/57‑1 (MQ=255)
aTTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCaaa < 1:3893390/57‑1 (MQ=255)
aTTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCaaa < 1:3971997/57‑1 (MQ=255)
tACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACt > 1:4923195/1‑71 (MQ=255)
aCCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCGCGGCGAACt > 1:746055/1‑70 (MQ=255)
aCCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCGCGGCGAACt < 1:2948543/70‑1 (MQ=255)
ccTGCTTAGCCAGTAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTgc < 1:79608/59‑1 (MQ=255)
ccTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTgc < 1:4251452/59‑1 (MQ=255)
ccTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCTCGGCGAACTg < 1:1472010/70‑1 (MQ=255)
ttAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCGCGGCGAACTGACGccg > 1:3939705/1‑69 (MQ=255)
gCCAGGAACTGTATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGc < 1:4285207/71‑1 (MQ=255)
ccAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCaaa < 1:2729597/44‑1 (MQ=255)
aCTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAAcc > 1:2774454/1‑41 (MQ=255)
cTGGATACTGAAACCATTCGCAAGGCCATGAGCCaaa < 1:3934465/37‑1 (MQ=255)
tGGATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCt < 1:3785432/63‑1 (MQ=255)
ggATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCa > 1:919498/1‑71 (MQ=255)
ggATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCa > 1:5183983/1‑71 (MQ=255)
gATACTGAAACCATTCGCAAGGCCATGAGCTAAAAc > 1:1504160/1‑36 (MQ=255)
aTACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGAc < 1:1191379/52‑1 (MQ=255)
aTACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGAc < 1:548966/52‑1 (MQ=255)
cTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACttt < 1:3540266/70‑1 (MQ=255)
gAAACCATTTGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCt < 1:3121499/55‑1 (MQ=255)
gAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTaa > 1:901442/1‑70 (MQ=255)
gAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAAt > 1:2287663/1‑71 (MQ=255)
gAAACCATTCGCAAGGCCATGAGCCAAAACCTGCGCGGCGAACTGACGc < 1:2351412/49‑1 (MQ=255)
aaaCCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATc > 1:4550020/1‑71 (MQ=255)
cATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGc > 1:224134/1‑71 (MQ=255)
cATTCGCAAGGCCATGAGCTAAAACCTGCGAGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGc > 1:2001226/1‑71 (MQ=255)
aTTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTa < 1:2576795/63‑1 (MQ=255)
aTTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCt < 1:3881346/71‑1 (MQ=255)
ggCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCATATCTCACTTTAATCGTGCTCACATTAc > 1:2865008/1‑71 (MQ=255)
ggCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTCACATTa > 1:1571229/1‑70 (MQ=255)
ccATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTCACATTACGt < 1:216491/71‑1 (MQ=255)
aTGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTca < 1:1624897/61‑1 (MQ=255)
aTGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTca < 1:365010/61‑1 (MQ=255)
tGAGCTAAAACCTGCGCGGAGAACTGACGCTTTGCTca > 1:5331619/1‑38 (MQ=255)
aGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTCACATTACGTGACt < 1:4188420/70‑1 (MQ=255)
|
CGCTAACCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTCACATTACGTGACT > minE/1179464‑1179598
|
| 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
