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 |
|
A8 F34 I0 R1
|
33 |
34.5 |
1234658 |
88.6% |
1093906 |
148.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913_3_hsa_tpiA |
2,679,525 |
G→T |
100% |
A1074D (GCT→GAT) |
yphG ← |
DUF4380 domain‑containing TPR repeat protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913_3_hsa_tpiA | 2,679,525 | 0 | G | T | 100.0%
| 47.7
/ NA
| 20 | A1074D (GCT→GAT) | yphG | DUF4380 domain‑containing TPR repeat protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (11/9); total (11/9) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAAC > NC_000913_3_hsa_tpiA/2679386‑2679659
|
tttATTAACAACGGCTTATTCTAATTATTTTGTGATGAGAGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATACCGCTATCGGCCAATcccgctcaa > 2:137877/1‑142 (MQ=255)
tattaACAACGGCTTATTATAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATc < 1:24939/149‑1 (MQ=255)
cTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCATCAATTCa > 1:30879/1‑149 (MQ=255)
ttATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATAAAACAGGTAAGAGCGTTTAGTGCACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAg < 1:424917/149‑1 (MQ=255)
tCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATACTGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGcgcg > 1:516574/1‑149 (MQ=255)
tAATTATGTGGTGGTGGGCGGGAGCGGGGGCCGATGGACTATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAg < 2:70116/149‑1 (MQ=255)
ttGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGCATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCa > 2:344875/1‑149 (MQ=255)
atgaGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCAAGAGGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTAACTTTAGCGCGGGAAGACTCATATTg > 1:238307/1‑149 (MQ=255)
aaTATTACAGTTAATAGGGTTTAGTGAACGTGGTTAAAAATAAAAGGTATCGCGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGa < 1:323824/149‑1 (MQ=255)
gggTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGAGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCAAGCAGACTAATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGccacc > 2:442843/1‑149 (MQ=255)
gaatAAAAAGAAAAGGCATCACGGTGATGAAAAATGCCGCCTTCGGCCAATCCGAATTAAGCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAAACCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCt < 2:578596/146‑1 (MQ=255)
ttAAAAATAAAAGGCATCGCGGTGGTGAATAATGCCGCTTTCGGCCAATGCGGATTAATCGCCGTCAATTGAGCGCGAGCAGACTCATATTGAGCAACCTCCCCGAGTCCCGCGGACGCCCGCATAGCCGCCATCAGGCATGTTTCgtt > 2:451755/1‑149 (MQ=255)
tAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCCTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTa < 2:296711/149‑1 (MQ=255)
aaaaaTAAGAGGCATCGCGGTGGTGAATAATGCCGCTTTCGGCGAATGGGGAGTGATCGCCGTTAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCATCATCAGGCATTTTTCTTTAt < 1:115650/149‑1 (MQ=255)
aaaaaTAAAAGGCGTCATGGGTGTAAATATGTCCGCTTTCCCCCAATCCGTATAAATCGCCGTCAATTCGGCGCGAGCAGACTTATATTGCTCAACCTCCCCTAGCCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTAt < 2:201263/149‑1 (MQ=255)
tAAAAGGCTTCTCGGTGGTGAATTATGCCGCTTTCGTCCAATCCTGTTTAATCGTCTTCAATTCAGCGCGAGCAGTCTTTTTTTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCTTCGCCACCATCATGCATTTTTGTTTAtgctgc < 2:120094/149‑1 (MQ=255)
tAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTAtgctgc > 1:4872/1‑149 (MQ=255)
ggtgAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCAt > 1:175113/1‑149 (MQ=255)
aataatGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGCCTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTTTTTATGTTGCTGTTGTAAATCGCCATatac > 2:448698/1‑146 (MQ=255)
ccGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGTATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGacaac > 1:121180/1‑149 (MQ=255)
|
TTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAAC > NC_000913_3_hsa_tpiA/2679386‑2679659
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
