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 F21 I0 R2
|
44 |
10.9 |
588504 |
78.3% |
460798 |
57.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
719,425 |
T→C |
100% |
F253F (TTT→TTC) |
mviN → |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 719,425 | 0 | T | C | 85.7%
| 11.5
/ ‑1.9
| 7 | F253F (TTT→TTC) | mviN | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (6/0); total (6/1) |
| Fisher's exact test for biased strand distribution p-value = 1.43e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.53e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TCATCAACACCATTTTTGCCTCGTTTCTTGCTTCCGGTTCGGTGTCTTGGATGTATTACGCCGACCG > minE/719409‑719475
|
tcatcaACACCATCTTCGCCTCGTTCCTGGCAGCCGGTTCGGTGTCCTGGATGtactac > 1:152587/1‑59 (MQ=255)
tcatcaACACCATCTTCGCCTCGTTCCTGGCAGCCGGTTCGGTGTCCTGGATGtactac > 1:171228/1‑59 (MQ=255)
tcatcaACACCATCTTCGCCTCGTTCCTGGCAGCCGGTTCGGTGTCCTGGATGtactac > 1:183414/1‑59 (MQ=255)
tcatcaACACCATCTTCGCCTCGTTCCTGGCAGCCGGTTCGGTGTCCTGGATGtactac > 1:246384/1‑59 (MQ=255)
tcatcaACACCATCTTCGCCTCGTTCCTGGCAGCCGGTTCGGTGTCCTGGATGtactac > 1:247073/1‑59 (MQ=255)
tcatcaACACCATCTTCGCCTCGTTCCTGGCAGCCGGTTCGGTGTCCTGGATGtactac > 1:443465/1‑59 (MQ=255)
aTTTTTGCCTCGTTTCTTGCTTCCGGTTCGGTGTCTTGGATGTATTACGCCGACCg < 1:449070/56‑1 (MQ=255)
|
TCATCAACACCATTTTTGCCTCGTTTCTTGCTTCCGGTTCGGTGTCTTGGATGTATTACGCCGACCG > minE/719409‑719475
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
