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 F28 I1 R1
|
354 |
41.7 |
3110465 |
93.1% |
2895842 |
61.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,006,848 |
A→T |
K159* (AAA→TAA) |
ycbW → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,006,848 | 0 | A | T | 87.5%
| 16.4
/ ‑3.0
| 8 | K159* (AAA→TAA) | ycbW | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base T (0/7); total (0/8) |
| 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 |
GGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGT > W3110S.gb/1006818‑1006885
|
ggTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGTTaa < 1:1481584/65‑1 (MQ=255)
cgcgcgATGCAGTTGGGCGACGCCATTTAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGt < 1:1175579/65‑1 (MQ=255)
cgcgcgATGCAGTTGGGCGACGCCATTTAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGt < 1:1532653/65‑1 (MQ=255)
cgcgcgATGCAGTTGGGCGACGCCATTTAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGt < 1:2725228/65‑1 (MQ=255)
cgcgcgATGCAGTTGGGCGACGCCATTTAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGt < 1:2869615/65‑1 (MQ=255)
cgcgcgATGCAGTTGGGCGACGCCATTTAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGt < 1:363598/65‑1 (MQ=255)
cgcgcgATGCAGTTGGGCGACGCCATTTAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGt < 1:454731/65‑1 (MQ=255)
cgcgcgATGCAGTTAGGCGACGCCATTTAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGt < 1:606383/65‑1 (MQ=255)
|
GGTCGCGCGATGCAGTTGGGCGACGCCATTAAAATCATGAACGACAGGCTGAAACCGCAGGTTAATGT > W3110S.gb/1006818‑1006885
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
