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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,821,480 |
T→C |
59.4% |
T316A (ACC→GCC) |
recA ← |
DNA strand exchange and recombination protein with protease and nuclease activity |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,821,480 | 0 | T | C | 59.4%
| 21.8
/ 31.2
| 32 | T316A (ACC→GCC) | recA | DNA strand exchange and recombination protein with protease and nuclease activity |
| Reads supporting (aligned to +/- strand): ref base T (5/8); new base C (8/11); total (13/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGTTGAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCACCTT > W3110S.gb/2821421‑2821542
|
cGTTGAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGtt < 1:1739271/69‑1 (MQ=255)
cGTTGAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGtt < 1:1823905/69‑1 (MQ=255)
cGTTGAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGtt < 1:3007318/69‑1 (MQ=255)
gTTGAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTa < 1:429344/69‑1 (MQ=255)
gAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATc > 1:2145275/1‑68 (MQ=255)
cGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGtt < 1:3408118/60‑1 (MQ=255)
gTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCa > 1:3615127/1‑65 (MQ=255)
gcagcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAg > 1:16059/1‑62 (MQ=255)
gcagcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCg > 1:1966398/1‑69 (MQ=255)
gcagcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCg > 1:2841512/1‑69 (MQ=255)
cagcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCTGGTTATCTTTCAGCCAGGCAGTCg < 1:1192784/68‑1 (MQ=255)
cagcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCg < 1:787499/68‑1 (MQ=255)
cagcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCg < 1:200494/68‑1 (MQ=255)
cagcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCg < 1:2352030/68‑1 (MQ=255)
cagcaACTCACGTACTTTCTTCTCGATCTATTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCg < 1:3215392/68‑1 (MQ=255)
agcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCa < 1:3212892/69‑1 (MQ=255)
agcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCa < 1:3607343/69‑1 (MQ=255)
agcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCa < 1:2849476/69‑1 (MQ=255)
caACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCAtt < 1:815731/69‑1 (MQ=255)
aaCTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCg > 1:3298157/1‑64 (MQ=255)
aaCTCACGTACTTTCTTCTCGATCTCTATCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTc > 1:3370437/1‑69 (MQ=255)
cTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGc < 1:1732669/69‑1 (MQ=255)
tCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGc > 1:707772/1‑68 (MQ=255)
cGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTAGCCTGACCGa < 1:921391/66‑1 (MQ=255)
tctcTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGAtcttct > 1:93808/1‑69 (MQ=255)
tctcTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGAtcttct > 1:665537/1‑69 (MQ=255)
tctcTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGAtctt < 1:714814/67‑1 (MQ=255)
tCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGAtcttct < 1:2706105/63‑1 (MQ=255)
tCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTtctc < 1:2218037/64‑1 (MQ=255)
tCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCACCtt > 1:2885503/1‑69 (MQ=255)
tCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCACCtt > 1:2881089/1‑69 (MQ=255)
tCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCACCtt > 1:2058029/1‑69 (MQ=255)
|
CGTTGAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCACCTT > W3110S.gb/2821421‑2821542
|
| 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
