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 |
3,179,239 |
C→T |
L55L (CTG→TTG) |
ygiC → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,179,239 | 0 | C | T | 85.7%
| 12.7
/ ‑3.1
| 7 | L55L (CTG→TTG) | ygiC | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (5/1); total (5/2) |
| Fisher's exact test for biased strand distribution p-value = 2.86e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCTGATGAC > W3110S.gb/3179206‑3179297
|
cAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAATTGCACCAGATGTGCCTGAAAGTGGTGGaaaa < 1:1920673/65‑1 (MQ=255)
aGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGc < 1:2631063/64‑1 (MQ=255)
ccgAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCTGATGAc > 1:1159284/1‑64 (MQ=255)
ccgAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCTGATGAc > 1:2213037/1‑64 (MQ=255)
ccgAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCTGATGAc > 1:2668548/1‑64 (MQ=255)
ccgAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCTGATGAc > 1:2794653/1‑64 (MQ=255)
ccgAATTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCTGATGAc > 1:2852054/1‑64 (MQ=255)
|
CAGGTTGAAAAGCTGGAAGAAGTCACCGCCGAACTGCACCAGATGTGCCTGAAAGTGGTGGAAAAAGTGATCGCCAGCGATGAGCTGATGAC > W3110S.gb/3179206‑3179297
|
| 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
