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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,953,831 |
T→C |
22.5% |
T277A (ACA→GCA) |
recB ← |
exonuclease V (RecBCD complex), beta subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,953,831 | 0 | T | C | 22.5%
| 73.7
/ 20.4
| 40 | T277A (ACA→GCA) | recB | exonuclease V (RecBCD complex), beta subunit |
| Reads supporting (aligned to +/- strand): ref base T (18/13); new base C (5/4); total (23/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.93e-01 |
CCTTCGTGCGATCTTCTAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCATTTAGCCTGATTGCTACGGTTAAACTTGC > W3110S.gb/2953762‑2953896
|
ccTTCGTGCGATCTTCTAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGtc < 1:3321100/71‑1 (MQ=255)
cGTGCGATCTTCTAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGtctc < 1:2477573/69‑1 (MQ=255)
cGTGCGATCTTCTAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGtct > 1:1546300/1‑68 (MQ=255)
cGTGCGATCTTCTAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCtctt > 1:993783/1‑71 (MQ=255)
cGTGCGATCTTCTAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCtctt > 1:234446/1‑71 (MQ=255)
cGTGCGATCTTCTAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGCctct > 1:957496/1‑70 (MQ=255)
cGTGCGATCTTCTAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCAGCAACTGATAACTGTTTGTCtctt > 1:1038503/1‑71 (MQ=255)
gTGCGATCTTCTAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCtcttc < 1:3096761/71‑1 (MQ=255)
gtAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTCTGTCTCTTCTTCTg < 1:3802461/65‑1 (MQ=255)
ctAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGt > 1:3450773/1‑55 (MQ=255)
ctAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGt > 1:2474806/1‑55 (MQ=255)
ctAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCtcttcttct < 1:1905535/65‑1 (MQ=255)
ctAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCTCTTCTTCTGCCCAg > 1:422810/1‑71 (MQ=255)
ctAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCTCTTCTTCTGCCCAg > 1:1994984/1‑71 (MQ=255)
ctAAGAAACCCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCTCTTCTTCTGCCCAg > 1:378249/1‑71 (MQ=255)
aaaCGCTGGGAGAATTTTTCCAGCGACTGCGGCAACTGATAACTGTTTGTCTCTTCTTCTGCCCAGGCGCt < 1:1901565/71‑1 (MQ=255)
aaaCGCTGGGAGAATTTTTCCAGCGACCCCGGCAACTGATAACTGTTTGTCTCTTCTTCTGCCCAGGCGCt < 1:3700670/71‑1 (MQ=255)
aaCGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCTCTTCTTCTGCCCAGGCGCt > 1:3675937/1‑70 (MQ=255)
aaCGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCTCTTCTTCTGCCCAGGCGCt > 1:4052942/1‑70 (MQ=255)
aaCGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCTCTTCTTCTGCCCAGGCGCt > 1:279004/1‑70 (MQ=255)
cGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCtcttcttc > 1:610191/1‑56 (MQ=255)
cGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCtcttcttc > 1:1397215/1‑56 (MQ=255)
gCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCTCTTCTTCTGCCCAGGCGCTGATc > 1:3933464/1‑71 (MQ=255)
tttCCAGCGACTCCGGCAACTGATAACTGTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCAt > 1:3574339/1‑71 (MQ=255)
tttCCAGCGACTCCGGCAACTGATAACTGTTTGCCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCa < 1:567505/70‑1 (MQ=255)
tttCCAGCGACTCCGGCAACTGATAACTGTTTGCCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCa < 1:251991/70‑1 (MQ=255)
tttCCAGCGACTCCGGCAACTGATAACTGTTTGCCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCa < 1:2475048/70‑1 (MQ=255)
cGACTCCGGCAACTGATAACTGTTTGCCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCATTTAGCCt < 1:3214677/71‑1 (MQ=255)
cTGATAACTGTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATcc < 1:4061670/50‑1 (MQ=255)
cTGATAACTGTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATcc < 1:2424966/50‑1 (MQ=255)
tGATAACTGTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCATTTAGCCTGATTGCTACGGt > 1:1426152/1‑70 (MQ=255)
tAACTGTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCATTTAGCCTGATTGCTACGGTTaaa < 1:1964055/71‑1 (MQ=255)
tAACTGTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCATTTAGCCTGATTGCTACGGTTaaa < 1:2359370/71‑1 (MQ=255)
aCTGTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCAt > 1:3169102/1‑46 (MQ=255)
aCTGTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCAt > 1:2526828/1‑46 (MQ=255)
aCTGTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCATTTAGCCTGATTGCTACGGTTAAACt > 1:2031864/1‑71 (MQ=255)
aCTGTTTGCCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGa > 1:1978970/1‑41 (MQ=255)
aCTGTTTGCCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCATTTAGCCTGATTGCTa > 1:362770/1‑61 (MQ=255)
aCTGTTTGCCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCATTTAGCCTGATTGCTa > 1:3390782/1‑61 (MQ=255)
gTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGt > 1:1050674/1‑35 (MQ=255)
gTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCATTTAGCCt < 1:555357/50‑1 (MQ=255)
gTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCATTTAGCCt < 1:2988180/50‑1 (MQ=255)
gTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCATTTAGCCt < 1:2476131/50‑1 (MQ=255)
gTTTGCCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCATTTAGCCTGATTGCTACGGTTAAACTTGc > 1:3917361/1‑71 (MQ=255)
tttGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATcc < 1:2302039/40‑1 (MQ=255)
|
CCTTCGTGCGATCTTCTAAGAAACGCTGGGAGAATTTTTCCAGCGACTCCGGCAACTGATAACTGTTTGTCTCTTCTTCTGCCCAGGCGCTGATCTTGTCGATCCATTTAGCCTGATTGCTACGGTTAAACTTGC > W3110S.gb/2953762‑2953896
|
| 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
