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 |
1,532,388 |
T→A |
100% |
Q113L (CAA→CTA) |
aroC ← |
chorismate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,532,388 | 0 | T | A | 100.0%
| 94.7
/ NA
| 30 | Q113L (CAA→CTA) | aroC | chorismate synthase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base A (30/0); total (30/0) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CACCGCCGCGATAATCGCGCAGACCGTATTTTTGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACG > minE/1532356‑1532426
|
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTaa > 1:1585833/1‑47 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:1092176/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:847400/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:843605/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:654901/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:423926/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:305847/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:2866666/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:2788032/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:274165/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:269610/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:2654859/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:2557785/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:2437999/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:2400156/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:2344045/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:1867414/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:1791131/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:1718961/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:1687197/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:1634606/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:1433154/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:141559/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:1415266/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:1327328/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:1233632/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:1166550/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:113885/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTAGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:1059084/1‑71 (MQ=255)
cACCGCCGCGATAATCGCGCAGACCGTATTTTACTTCGTATGTGTAATCGGCATGGCCTGGACGGAAAACg > 1:2201594/1‑71 (MQ=255)
|
CACCGCCGCGATAATCGCGCAGACCGTATTTTTGTTCGTAGGTGTAATCGGCATGGCCTGGACGGAAAACG > minE/1532356‑1532426
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
