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 F1 I1 R1
|
66 |
20.9 |
912876 |
97.7% |
891879 |
114.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,815,811 |
Δ1 bp |
intergenic (‑43/+23) |
pyrE ← / ← rph |
orotate phosphoribosyltransferase/ribonuclease PH (defective),enzyme, Degradation of RNA, RNase PH |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,815,811 | 0 | C | . | 88.9%
| 61.2
/ 3.3
| 18 | intergenic (‑43/+23) | pyrE/rph | orotate phosphoribosyltransferase/ribonuclease PH (defective),enzyme, Degradation of RNA, RNase PH |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base . (8/8); minor base G (2/0); total (10/8) |
| Fisher's exact test for biased strand distribution p-value = 4.77e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
AAACTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTC > NC_000913/3815700‑3815944
|
aaaCTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGtt > 2:55196/1‑139 (MQ=255)
cacCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTg < 2:215953/139‑1 (MQ=255)
gcttgctAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAAAGGGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGcct > 2:154965/1‑137 (MQ=255)
ctAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACa < 1:55196/139‑1 (MQ=255)
cgcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAACATCAGTTTGCCAGCGCCGCCTTCTg > 2:287366/1‑124 (MQ=255)
cgcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTg < 1:287366/124‑1 (MQ=255)
cgcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGga > 2:143024/1‑139 (MQ=255)
cgcTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCa > 2:169797/1‑139 (MQ=255)
aTGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGc < 1:220087/96‑1 (MQ=255)
aTGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGc > 2:220087/1‑96 (MQ=255)
ttCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAg < 1:313190/138‑1 (MQ=255)
ttCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAg > 2:313190/1‑138 (MQ=255)
tCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGct > 2:174780/1‑139 (MQ=255)
gCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAAGGGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGctc > 2:233349/1‑139 (MQ=255)
aCAGAC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGcc < 2:416020/139‑1 (MQ=255)
aC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGgattcgat < 1:306102/79‑1 (MQ=255)
aC‑AAAAAAAAGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGgattcgat > 2:306102/1‑79 (MQ=255)
aaaaGG‑GACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTc < 1:174780/139‑1 (MQ=255)
|
AAACTCGCCAAACTTTAACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTC > NC_000913/3815700‑3815944
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
