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 |
1,179,532 |
T→C |
43.5% |
*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 | 43.5%
| 13.1
/ 54.8
| 46 | *328Q (TAA→CAA) | ansA | cytoplasmic L‑asparaginase I |
| Reads supporting (aligned to +/- strand): ref base T (18/8); new base C (9/11); total (27/19) |
| Fisher's exact test for biased strand distribution p-value = 1.35e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCTAACCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTCACAT > minE/1179465‑1179589
|
gCTAACCAAACTGCATTACCTGCTTAGCTAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCaa > 1:58204/1‑70 (MQ=255)
gCTAACCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTaa > 1:1008528/1‑70 (MQ=255)
gCTAACCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTaa > 1:3641307/1‑70 (MQ=255)
aCCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTAAAAcc < 1:605413/70‑1 (MQ=255)
aCCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCaaa < 1:1412741/67‑1 (MQ=255)
aCCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAAc < 1:3546076/69‑1 (MQ=255)
cAAACTGCATTACCTGCTTAGACAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTgc > 1:193328/1‑71 (MQ=255)
cAAACTGCATTACATGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCaaaa > 1:3277624/1‑66 (MQ=255)
aaCTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTaaaa > 1:1786279/1‑64 (MQ=255)
aaCTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTgcgc < 1:942166/71‑1 (MQ=255)
aCTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGcgcg > 1:3244723/1‑71 (MQ=255)
cATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCgcggcg < 1:368319/70‑1 (MQ=255)
ttACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAAc < 1:389046/71‑1 (MQ=255)
ttACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCGCGGCGAAc > 1:3641139/1‑71 (MQ=255)
aCCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAAcc > 1:2047378/1‑57 (MQ=255)
ccTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCaaa < 1:3533053/53‑1 (MQ=255)
ccTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCaaa < 1:1140260/53‑1 (MQ=255)
ccTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCGCTGCGAACTg < 1:2181000/70‑1 (MQ=255)
ccTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCGCGGCGAACTGa > 1:696434/1‑71 (MQ=255)
ccTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCGCGGCGAACTGa > 1:3119199/1‑71 (MQ=255)
cTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCGCGGCGAACTGAc < 1:1828396/71‑1 (MQ=255)
cTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCGCGGCGAACTGACg < 1:2990964/69‑1 (MQ=255)
ttAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCtt > 1:2269378/1‑71 (MQ=255)
aGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTc > 1:3874412/1‑70 (MQ=255)
ggAACTGGATACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCgcgg > 1:179321/1‑51 (MQ=255)
ggATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAAc > 1:3489145/1‑50 (MQ=255)
aTACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTgcg < 1:3080344/40‑1 (MQ=255)
aTACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTgcg < 1:3546221/40‑1 (MQ=255)
aTACTGAAACCATTCGCAAGGCCATGAGCCAAAACCTGCGCGGAGAACTg < 1:4812/50‑1 (MQ=255)
cTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACttt < 1:2603905/70‑1 (MQ=255)
cTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACttt < 1:3140001/70‑1 (MQ=255)
tGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTaa > 1:3764208/1‑71 (MQ=255)
tGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTaa > 1:155447/1‑71 (MQ=255)
gAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTg > 1:1826578/1‑53 (MQ=255)
aatccATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTaa < 1:2001524/66‑1 (MQ=255)
aaaCCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATc > 1:1262637/1‑71 (MQ=255)
aaaCCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATc > 1:2406704/1‑71 (MQ=255)
aaCCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCg < 1:3302578/71‑1 (MQ=255)
aaCCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCg > 1:2613304/1‑71 (MQ=255)
tCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTca > 1:684693/1‑71 (MQ=255)
cGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTca > 1:153951/1‑70 (MQ=255)
cGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTca > 1:1336465/1‑70 (MQ=255)
cGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTca > 1:2291321/1‑70 (MQ=255)
aaGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTCACAt > 1:671482/1‑70 (MQ=255)
ggCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGc > 1:1991086/1‑40 (MQ=255)
ccATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACttt < 1:336919/52‑1 (MQ=255)
|
GCTAACCAAACTGCATTACCTGCTTAGCCAGGAACTGGATACTGAAACCATTCGCAAGGCCATGAGCTAAAACCTGCGCGGCGAACTGACGCTTTGCTCACATCTCACTTTAATCGTGCTCACAT > minE/1179465‑1179589
|
| 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
