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 |
|
A2 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,523,433 |
G→T |
29.2% |
A78S (GCC→TCC) |
flk → |
predicted flagella assembly protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,523,433 | 0 | G | T | 29.2%
| 85.8
/ 23.2
| 41 | A78S (GCC→TCC) | flk | predicted flagella assembly protein |
| Reads supporting (aligned to +/- strand): ref base G (20/9); new base T (9/3); total (29/12) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.22e-01 |
GGTATCAGGCACGATATTGGTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACGTCTGCTGGCCGCGCAAAAAAGCCATTCTGCCCGCCAGCTTT > minE/1523373‑1523499
|
ggTATCAGGCACGATATTGGTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCa < 1:4072489/71‑1 (MQ=255)
tATCAGGCACGATATTGGTCTGTCGGGAGATTCACCGCTGCTTTCGCTTCACTTCCCTGCCGCTGAGCATa < 1:3734627/71‑1 (MQ=255)
tCAGGCACGATATTGGTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAAt < 1:1121344/71‑1 (MQ=255)
cACGATATTGGTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGgc > 1:800784/1‑71 (MQ=255)
aCGATATTGGTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGgcg > 1:606130/1‑71 (MQ=255)
aCGATATTGGTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGgcg > 1:27827/1‑71 (MQ=255)
aCGATATTGGTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGgcg > 1:2377015/1‑71 (MQ=255)
atTGGTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACg > 1:311033/1‑71 (MQ=255)
atTGGTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACg > 1:765224/1‑71 (MQ=255)
atTGGTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACg > 1:3197688/1‑71 (MQ=255)
atTGGTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACg > 1:1065587/1‑71 (MQ=255)
ggTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTTCCGCTGAGCATAATCTGGCGCAACGTct > 1:1982076/1‑71 (MQ=255)
ggTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTTCCGCTGAGCATAATCTGGCGCAACGTct > 1:1546216/1‑71 (MQ=255)
ggTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTTCCGCTGAGCATAATCTGGCGCAACGTct > 1:3292627/1‑71 (MQ=255)
ggTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACGTct > 1:1438711/1‑71 (MQ=255)
ggTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACGTct > 1:3840319/1‑71 (MQ=255)
gTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACGTct < 1:2254851/70‑1 (MQ=255)
gTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACGTct < 1:3777420/70‑1 (MQ=255)
tCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACGTctgct < 1:2845640/68‑1 (MQ=255)
tCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACGTctgct < 1:3321152/68‑1 (MQ=255)
ggAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCa < 1:2820415/44‑1 (MQ=255)
gagaTTCACCGCTGCTTTCGCGTCACTTCCCTTCCGCTGAGCATAATCTGGCGCa > 1:470470/1‑55 (MQ=255)
ttCACCGCTGCTTTCGCGTCACTTCCCTTCCGCTGAGCATAATCTGGCGCAACg < 1:1615768/54‑1 (MQ=255)
cGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACGTCTGCTGGCCGCGCAAAAAAGc < 1:4076140/71‑1 (MQ=255)
gctTTCGCGTCACTTCCCTTCCGCTGAGCATAATCTGGCGCAACGTCTGCTGGCCGCGCAAAAAAGCCAtt > 1:2779977/1‑71 (MQ=255)
ttCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACGTctg > 1:3928848/1‑46 (MQ=255)
ttCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACGTct > 1:2108983/1‑45 (MQ=255)
tCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCaa > 1:1961125/1‑39 (MQ=255)
tCACTTCCCTTCCGCTGAGCATAATCTGGCGCAACGTCTGCTGGCCGCGCAAAAAAGCCAt < 1:2974848/61‑1 (MQ=255)
cACTTCCCTTCCGCTGAGCATAATCTGGCGCAACGTCTGCTGGCCGCGCAAAAAAGCCAt < 1:1438788/60‑1 (MQ=255)
aCTTCCCTTCCGCTGAGCATAATCTGGCGCAACGTCTGCTGGCCGCGCAAAAAAGCCATTATGCCCGCCAg > 1:553499/1‑71 (MQ=255)
ttCCCTTCCGCTGAGCATAATCTGGCGCAACGTCTGCTGGCCGCGCAAAAAAGCCATTCTGCCCGCCAGCt > 1:755643/1‑71 (MQ=255)
ttCCCTGCCGCTGAGCATAATCTGGCGCAACGTCTGCTGGCCGCGCAAAAAAGCCATTc > 1:1267845/1‑59 (MQ=255)
tCCCTGCCGCTGAGCATAATCTGGCGCAACGTCTGCTgg > 1:3574750/1‑39 (MQ=255)
tCCCTGCCGCTGAGCATAATCTGGCGCAACGTCTGCTgg > 1:4018458/1‑39 (MQ=255)
tCCCTGCCGCTGAGCATAATCTGGCGCAACGTCTGCTgg > 1:3225826/1‑39 (MQ=255)
tCCCTGCCGCTGAGCATAATCTGGCGCAACGTCTGCTgg > 1:1214576/1‑39 (MQ=255)
tCCCTGCCGCTGAGCATAATCTGGCGCAACGTCTGCTGGCCGCGCAAAAAAGCCTTTc > 1:546662/1‑58 (MQ=255)
tCCCTGCCGCTGAGCATAATCTGGCGCAACGTCTGCTGGCCGCGCAAAAAAGCCATTc > 1:2881717/1‑58 (MQ=255)
ccTTCCGGTGAGCATAATCTGGCGCAACGTCTGCTGGCCGCGCAAAAAAGCCATTCTGCCCGCCAGCttt > 1:815182/1‑70 (MQ=255)
ccTTCCGCTGAGCATAATCTGGCGCAACGTCTGCTGGCCGCGCAAAAAAGCCATTCTGCCCGCCAGCttt > 1:163029/1‑70 (MQ=255)
|
GGTATCAGGCACGATATTGGTCTGTCGGGAGATTCACCGCTGCTTTCGCGTCACTTCCCTGCCGCTGAGCATAATCTGGCGCAACGTCTGCTGGCCGCGCAAAAAAGCCATTCTGCCCGCCAGCTTT > minE/1523373‑1523499
|
| 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
