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 F3 I0 R1
|
328 |
90.1 |
2317887 |
85.2% |
1974839 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,953,337 |
Δ1 bp |
100% |
coding (772/1326 nt) |
pepP ← |
proline aminopeptidase P II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,953,337 | 0 | C | . | 87.5%
| 20.9
/ ‑1.2
| 8 | coding (772/1326 nt) | pepP | proline aminopeptidase P II |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base . (0/7); total (0/8) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.65e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AACCTTTGTATTCACAACCCGCGTCAATCAACACCAGGTCGCCGTCGCGCATTTCACACTCGTTTTCGGTGTAGTGC > minE/1953304‑1953380
|
aaCCTTTGTATTCACAACCCGCGTCAATCAACACCAGGTCGCCGTCGCGCATTTCACACTCGTTTTc < 1:1410070/67‑1 (MQ=255)
ttCACAACCCGCGTCAATCAACA‑CAGGTCGCCGTCGCGCATTTCACACTCGTTTTCGGTGTAGTGc < 1:1292028/66‑1 (MQ=255)
ttCACAACCCGCGTCAATCAACA‑CAGGTCGCCGTCGCGCATTTCACACTCGTTTTCGGTGTAGTGc < 1:1340279/66‑1 (MQ=255)
ttCACAACCCGCGTCAATCAACA‑CAGGTCGCCGTCGCGCATTTCACACTCGTTTTCGGTGTAGTGc < 1:1425205/66‑1 (MQ=255)
ttCACAACCCGCGTCAATCAACA‑CAGGTCGCCGTCGCGCATTTCACACTCGTTTTCGGTGTAGTGc < 1:1546972/66‑1 (MQ=255)
ttCACAACCCGCGTCAATCAACA‑CAGGTCGCCGTCGCGCATTTCACACTCGTTTTCGGTGTAGTGc < 1:1850011/66‑1 (MQ=255)
ttCACAACCCGCGTCAATCAACA‑CAGGTCGCCGTCGCGCATTTCACACTCGTTTTCGGTGTAGTGc < 1:1868154/66‑1 (MQ=255)
ttCACAACCCGCGTCAATCAACA‑CAGGTCGCCGTCGCGCATTTCACACTCGTTTTCGGTGTAGTGc < 1:88870/66‑1 (MQ=255)
|
AACCTTTGTATTCACAACCCGCGTCAATCAACACCAGGTCGCCGTCGCGCATTTCACACTCGTTTTCGGTGTAGTGC > minE/1953304‑1953380
|
| 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
