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 |
2,891,414 |
C→A |
83.3% |
P23P (CCC→CCA) |
ytfQ → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,891,414 | 0 | C | A | 83.3%
| 134.5
/ 29.2
| 72 | P23P (CCC→CCA) | ytfQ | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (3/9); new base A (35/25); total (38/34) |
| Fisher's exact test for biased strand distribution p-value = 5.56e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.70e-01 |
GTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCCTTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAACCAATGTGGCGA > minE/2891348‑2891481
|
gtgGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTaa > 1:3160357/1‑71 (MQ=255)
aaaCGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCCTTAACCGt < 1:2771445/71‑1 (MQ=255)
aaCGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGtt < 1:2156869/71‑1 (MQ=255)
cGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTg > 1:793573/1‑70 (MQ=255)
gCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGa > 1:477223/1‑71 (MQ=255)
gCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGa > 1:1644834/1‑71 (MQ=255)
acttaTAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCCTTAACCGTTGGAttt < 1:499771/70‑1 (MQ=255)
acttaTAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGAttt > 1:3172682/1‑70 (MQ=255)
tataGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTc > 1:1988448/1‑69 (MQ=255)
tataGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCg > 1:856054/1‑70 (MQ=255)
tataGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCg > 1:4192863/1‑70 (MQ=255)
tataGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCg > 1:4080021/1‑70 (MQ=255)
gTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGAt > 1:2968793/1‑61 (MQ=255)
gTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGt < 1:318984/71‑1 (MQ=255)
tctcTGCAGTCTCGGCAGCCATGTCGTCTTTGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAgg < 1:5673827/69‑1 (MQ=255)
tctcTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCg < 1:184488/54‑1 (MQ=255)
tctcTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCg < 1:3869589/54‑1 (MQ=255)
tctcTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAgg < 1:3371476/69‑1 (MQ=255)
tctcTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAgg < 1:1667076/69‑1 (MQ=255)
ctctGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGtcg > 1:3043732/1‑71 (MQ=255)
tctGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGtcg > 1:3711553/1‑70 (MQ=255)
tGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCCTTAACCGTTGGAtttt > 1:1527808/1‑59 (MQ=255)
tGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCCTTAACCGTTGGAtttt > 1:2525782/1‑59 (MQ=255)
tGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCCTTAACCGTTGGAtt < 1:5429644/57‑1 (MQ=255)
cAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGtcggat < 1:1386304/69‑1 (MQ=255)
tcGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTgg > 1:399904/1‑47 (MQ=255)
tcGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTgg > 1:2915460/1‑47 (MQ=255)
tcGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTgg > 1:5580854/1‑47 (MQ=255)
tcGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTg > 1:2240297/1‑46 (MQ=255)
tcGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGa > 1:1125283/1‑48 (MQ=255)
cGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCCTTAACCGTTGGATTTTCGCAGGt < 1:3673012/58‑1 (MQ=255)
ggCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCa < 1:3736948/70‑1 (MQ=255)
gCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGc > 1:5578602/1‑52 (MQ=255)
gCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAgg < 1:4750902/71‑1 (MQ=255)
aGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAg > 1:561895/1‑52 (MQ=255)
aGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAg > 1:1052720/1‑52 (MQ=255)
tGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGAtt < 1:5673746/40‑1 (MQ=255)
tGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGAtt < 1:5360310/40‑1 (MQ=255)
tGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGAtt < 1:1094312/40‑1 (MQ=255)
gtcgtcTATGGCGTTGGCCGCTCCCTTAACCGTTGGATTTTCGCAGGTCGGATCGGAATc < 1:606165/60‑1 (MQ=255)
gtcgtcTATGGCGTTGGCCGCTCCCTTAACCGTTGGATTTTCGCAGGTCGGATCGGAATc < 1:4242425/60‑1 (MQ=255)
tcgtcTATGGCGTTGGCCGCTCCCTTAACCGTTGGATTTTCGCAg > 1:1013643/1‑45 (MQ=255)
tcgtcTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGc > 1:1054248/1‑71 (MQ=255)
tcgtcTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGc > 1:5503427/1‑71 (MQ=255)
tcgtcTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCAGGCGTGc > 1:3999523/1‑71 (MQ=255)
tcgtcTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTAGCAGGTCGGATCGGAATCAGGCTGGCGTGc > 1:4359971/1‑71 (MQ=255)
gtcTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGcc < 1:195057/70‑1 (MQ=255)
gtcTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGcc < 1:623359/70‑1 (MQ=255)
gtcTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGcc < 1:3563001/70‑1 (MQ=255)
gtcTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCg < 1:4976571/71‑1 (MQ=255)
cTATGGCGTTGGCCGCTCCATTAACCGTTGGAtttt < 1:2868340/36‑1 (MQ=255)
tGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCTGAATCAGGCTGGCGTGCCGCa < 1:2404115/68‑1 (MQ=255)
tGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCa < 1:1158279/68‑1 (MQ=255)
tGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGa > 1:4566704/1‑70 (MQ=255)
tGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGa < 1:254359/70‑1 (MQ=255)
tGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGa < 1:4288357/70‑1 (MQ=255)
tGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGa < 1:3900937/70‑1 (MQ=255)
ggCGTTGGCCGCTCCCTTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGa < 1:3805718/69‑1 (MQ=255)
ggCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCa > 1:115211/1‑36 (MQ=255)
ggCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGc > 1:3144295/1‑63 (MQ=255)
ggCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGc > 1:4882948/1‑63 (MQ=255)
gCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAAt > 1:664518/1‑49 (MQ=255)
gCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAAt > 1:5448093/1‑49 (MQ=255)
gCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGaaa < 1:300072/70‑1 (MQ=255)
ttGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAAt < 1:2084694/46‑1 (MQ=255)
ggCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGaa > 1:1389528/1‑64 (MQ=255)
ggCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAACCAAtg > 1:2040143/1‑71 (MQ=255)
ggCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAACCAAtg > 1:2671392/1‑71 (MQ=255)
ggCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAACCAAtg > 1:135331/1‑71 (MQ=255)
cGCTCCCTTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGa < 1:2175515/60‑1 (MQ=255)
gCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGa > 1:3592812/1‑59 (MQ=255)
cTCCCTTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAACCAATGTGGCg < 1:5172715/71‑1 (MQ=255)
cccTTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAACCAATGTGGCGa > 1:2678997/1‑70 (MQ=255)
cccTTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAACCAATGTGGCGa > 1:251989/1‑70 (MQ=255)
cccTTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAACCAATGTGGCGa > 1:2543319/1‑70 (MQ=255)
|
GTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCCTTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAACCAATGTGGCGA > minE/2891348‑2891481
|
| 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
