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 |
2,020,631 |
Δ1 bp |
100% |
coding (222/927 nt) |
yqhG → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,020,631 | 0 | T | . | 86.1%
| 115.8
/ 16.1
| 36 | coding (222/927 nt) | yqhG | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (0/5); new base . (0/31); total (0/36) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.66e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GCGCTTACCCTGAACGACAATCTTACGCTGCCGGGCAATATTGGCTGGCTGGATTATGATCCGGTTTGTGATTGTCAGGATTTTGG > minE/2020590‑2020675
|
gcgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATATTGGCTGGCTGGATTATGATCCGGttt < 1:1158543/67‑1 (MQ=255)
gcgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATATTGGCTGGCTGGATTATGATCCGGttt < 1:414784/67‑1 (MQ=255)
gcgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATATTGGCTGGCTGGATTATGATCCGGttt < 1:383912/67‑1 (MQ=255)
gcgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATATTGGCTGGCTGGATTATGATCCGGttt < 1:222152/67‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTAGGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:779235/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:1441637/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:770007/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:764616/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:711989/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:626396/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:526567/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:522358/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:492773/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:917918/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:1078772/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:929725/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:936344/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:2245375/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:1391994/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:2167292/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:2081712/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:1518341/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:1547100/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:1658888/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:1709031/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:1803454/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:1851795/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:1887502/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:1943354/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:19676/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:970002/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:2002269/63‑1 (MQ=255)
cgcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:212052/63‑1 (MQ=255)
gcTTACCCTGAACGACAATCTTACGCTGCCGGGCAATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:27237/62‑1 (MQ=255)
cccTGAACGACAATCTTACGCTGCCGGGCTATAT‑‑‑‑TGGCTGGATTATGATCCGGTTtg < 1:83949/57‑1 (MQ=255)
aTCTTACGCTGCCGGGCAATATTGGCTGGCTGGATTATGATCCGGTTTGTGATTGTCAGGATTTTgg < 1:1762915/67‑1 (MQ=255)
ttGGCTGGCTGGATTATGATCCGGTTTGTGATTGTCAGGATTTTgg < 1:1420944/46‑1 (MQ=255)
ttGGCTGGCTGGATTATGATCCGGTTTGTGATTGTCAGGATTTTgg < 1:971661/46‑1 (MQ=255)
ttGGCTGGCTGGATTATGATCCGGTTTGTGATTGTCAGGATTTTgg < 1:899617/46‑1 (MQ=255)
ttGGCTGGCTGGATTATGATCCGGTTTGTGATTGTCAGGATTTTgg < 1:819391/46‑1 (MQ=255)
ttGGCTGGCTGGATTATGATCCGGTTTGTGATTGTCAGGATTTTgg < 1:456318/46‑1 (MQ=255)
ttGGCTGGCTGGATTATGATCCGGTTTGTGATTGTCAGGATTTTgg < 1:118336/46‑1 (MQ=255)
ttGGCTGGCTGGATTATGATCCGGTTTGTGATTGTCAGGATTTTgg < 1:1992954/46‑1 (MQ=255)
ttGGCTGGCTGGATTATGATCCGGTTTGTGATTGTCAGGATTTTgg < 1:1931550/46‑1 (MQ=255)
ttGGCTGGCTGGATTATGATCCGGATTGTGATTGTCAGGATTTTgg < 1:2305174/46‑1 (MQ=255)
|
GCGCTTACCCTGAACGACAATCTTACGCTGCCGGGCAATATTGGCTGGCTGGATTATGATCCGGTTTGTGATTGTCAGGATTTTGG > minE/2020590‑2020675
|
| 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
