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 |
|
A2 F17 I0 R1
|
71 |
95.7 |
2922988 |
91.7% |
2680379 |
65.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,587,552 |
C→T |
100% |
G143G (GGC→GGT) |
ptsI → |
PEP‑protein phosphotransferase of PTS system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,587,552 | 0 | C | T | 100.0%
| 11.2
/ NA
| 5 | G143G (GGC→GGT) | ptsI | PEP‑protein phosphotransferase of PTS system |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (5/0); total (5/0) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GCTGACGTACGTGATATCGGTAAGCGCCTGCTGCGCAACATCCTGGGCCTGAAGATTATCGACCTGAGCGC > minE/1587505‑1587575
|
gcagACGTACGTGATATCGGTAAGCGCCTGCTGCGCAACATCCTGGGTCTGAAGATTATCGa > 1:254586/4‑62 (MQ=255)
gCTGACGTACGTGATATCGGTAAGCGCCTGCTGCGCAACATCCTGGGTCTGAAGATTATCGACCTGAgcgc > 1:1324616/1‑71 (MQ=255)
gCTGACGTACGTGATATCGGTAAGCGCCTGCTGCGCAACATCCTGGGTCTGAAGATTATCGACCTGAgcgc > 1:1944306/1‑71 (MQ=255)
gCTGACGTACGTGATATCGGTAAGCGCCTGCTGCGCAACATCCTGGGTCTGAAGATTATCGACCTGAgcgc > 1:2112979/1‑71 (MQ=255)
gCTGACGTACGTGATATCGGTAAGCGCCTGCTGCGCAACATCCTGGGTCTGAAGATTATCGACCTGAgcgc > 1:565842/1‑71 (MQ=255)
|
GCTGACGTACGTGATATCGGTAAGCGCCTGCTGCGCAACATCCTGGGCCTGAAGATTATCGACCTGAGCGC > minE/1587505‑1587575
|
| 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
