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 |
1,014,752 |
(TTG)2→3 |
coding (1072/1641 nt) |
pqiB → |
paraquat‑inducible protein B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,014,744 | 1 | . | T | 77.8%
| 15.8
/ 2.0
| 9 | coding (1064/1641 nt) | pqiB | paraquat‑inducible protein B |
| Reads supporting (aligned to +/- strand): ref base . (0/2); new base T (0/7); total (0/9) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.38e-01 |
| * | W3110S.gb | 1,014,744 | 2 | . | G | 77.8%
| 21.7
/ 1.2
| 9 | coding (1064/1641 nt) | pqiB | paraquat‑inducible protein B |
| Reads supporting (aligned to +/- strand): ref base . (0/2); new base G (0/7); total (0/9) |
| 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 |
| * | W3110S.gb | 1,014,744 | 3 | . | T | 77.8%
| 15.8
/ 2.0
| 9 | coding (1064/1641 nt) | pqiB | paraquat‑inducible protein B |
| Reads supporting (aligned to +/- strand): ref base . (0/2); new base T (0/7); total (0/9) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.76e-01 |
GCCAGAGCGGCTGAAAATGCAGCTTGGCGAAAATGCGGA‑‑‑TGTTGTTGAGCACCTTGGCGAATTGTTGAAACGTGGTTTACGCGGATCGC > W3110S.gb/1014706‑1014794
|||
gCCAGAGCGGCTGAAAATGCAGCTTGGCGAAAATGCGGA‑‑‑TGTTGTTGAGCACCTTGGCGAAttg < 1:1866450/64‑1 (MQ=255)
gCCAGAGCGGCTGAAAATGCAGCTTGGCGAAAATGCGGA‑‑‑TGTTGTTGAGCACCTTGGCGAAttg < 1:742929/64‑1 (MQ=255)
gAAAATGCGGATGTTGTTGTTGAGCACCTTGGCGAATTGTTGAAACGTGGTTTACGCGGATCGc < 1:1490249/64‑1 (MQ=255)
gAAAATGCGGATGTTGTTGTTGAGCACCTTGGCGAATTGTTGAAACGTGGTTTACGCGGATCGc < 1:1706202/64‑1 (MQ=255)
gAAAATGCGGATGTTGTTGTTGAGCACCTTGGCGAATTGTTGAAACGTGGTTTACGCGGATCGc < 1:2047934/64‑1 (MQ=255)
gAAAATGCGGATGTTGTTGTTGAGCACCTTGGCGAATTGTTGAAACGTGGTTTACGCGGATCGc < 1:2785338/64‑1 (MQ=255)
gAAAATGCGGATGTTGTTGTTGAGCACCTTGGCGAATTGTTGAAACGTGGTTTACGCGGATCGc < 1:2870920/64‑1 (MQ=255)
gAAAATGCGGATGTTGTTGTTGAGCACCTTGGCGAATTGTTGAAACGTGGTTTACGCGGATCGc < 1:3014621/64‑1 (MQ=255)
gAAAATGCGGATGTTGTTGTTGAGCACCTTGGCGAATTGTTGAAACGTGGTTTACGCGGATCGc < 1:363775/64‑1 (MQ=255)
|||
GCCAGAGCGGCTGAAAATGCAGCTTGGCGAAAATGCGGA‑‑‑TGTTGTTGAGCACCTTGGCGAATTGTTGAAACGTGGTTTACGCGGATCGC > W3110S.gb/1014706‑1014794
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
