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 |
|
A5 F28 I3 R1
|
375 |
42.1 |
2927644 |
71.4% |
2090337 |
57.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,175,619 |
C→T |
R293H (CGC→CAC) |
gspL ← |
general secretory pathway component, cryptic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,175,619 | 0 | C | T | 85.7%
| 10.5
/ ‑3.5
| 7 | R293H (CGC→CAC) | gspL | general secretory pathway component, cryptic |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (0/6); total (0/7) |
| 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 |
CACAGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGCGTTTGATCTGCGGGAAATAACG > W3110S.gb/4175558‑4175641
|
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:1881730/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:922740/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:896641/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:67937/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:628278/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:47769/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:318644/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:2925741/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:2718344/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:2652741/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:2336619/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:2319223/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:1028686/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:1602049/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:1483010/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:1324840/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:1245490/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:1206505/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:1129803/1‑62 (MQ=255)
cacaGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGc > 1:1114401/1‑62 (MQ=255)
atTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGCGTTTGATCTGCggg < 1:1311596/62‑1 (MQ=255)
ctTAAAGTAAAAACGAAAGTTGTGGGTGTGTTTGATCTGCGGGAAATAACg < 1:1716775/51‑1 (MQ=39)
ctTAAAGTAAAAACGAAAGTTGTGGGTGTGTTTGATCTGCGGGAAATAACg < 1:2164297/51‑1 (MQ=39)
ctTAAAGTAAAAACGAAAGTTGTGGGTGTGTTTGATCTGCGGGAAATAACg < 1:1275506/51‑1 (MQ=39)
ctTAAAGTAAAAACGAAAGTTGTGGGTGTGTTTGATCTGCGGGAAATAACg < 1:1262487/51‑1 (MQ=39)
ctTAAAGTAAAAACGAAAGTTGTGGGTGTGTTTGATCTGCGGGAAATAACg < 1:1247674/51‑1 (MQ=39)
aaCGAAAGTTGTGGGTGTGTTTGATCTGCGGGAAATAACg < 1:2577436/40‑1 (MQ=37)
|
CACAGCTTCAGGATATTGCTGAGCGAGTTGCTGCTTAAAGTAAAAACGAAAATTGTGGGTGCGTTTGATCTGCGGGAAATAACG > W3110S.gb/4175558‑4175641
|
| 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
