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 |
|
A4 F26 I1 R1
|
18 |
45.8 |
1652442 |
94.6% |
1563210 |
140.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913_3_hsa_tpiA |
2,817,170 |
C→A |
E112* (GAA→TAA) |
yqaB ← |
fructose‑1‑P and 6‑phosphogluconate phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913_3_hsa_tpiA | 2,817,170 | 0 | C | A | 96.7%
| 92.0
/ NA
| 30 | E112* (GAA→TAA) | yqaB | fructose‑1‑P and 6‑phosphogluconate phosphatase |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base A (15/14); minor base T (1/0); total (16/14) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTCACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGA > NC_000913_3_hsa_tpiA/2817037‑2817307
|
cccATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTAc > 1:444393/1‑149 (MQ=255)
ccATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACa > 2:10536/1‑149 (MQ=255)
gCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGGAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GCTGGCGCGTTACCGCCCCGTTCCTACAGCCAtt > 1:768587/1‑149 (MQ=255)
tGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATACCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTgg < 2:721916/149‑1 (MQ=255)
gcgcgcACAACAAAAATGTGTCTGGCGCGGGTCTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAAGAATGGCGTAATCCCAGGTGCGCCAGCAATTCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTggg < 1:245994/149‑1 (MQ=255)
gcACAACAAAAATGTGTCTGGCGCGGGTTTGCGTTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGcgac > 1:615800/1‑149 (MQ=255)
gcACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAACTGATGGCGTAATCCCAGGGGGGCAAGCAATGCCTCAGC‑GATGGCGCTTTTACTCCACGTTCCTAGCGCCATTGGGcaga > 2:269508/1‑146 (MQ=255)
cTGGCGCGGGTTTATGGTGTTTGCCGTGCTCCGCAGCCGCCGCGGACCCCAGCGAGTGGCGTAATCCATACTTGGTCAACCATGCCTAGCCTGAT‑GCTCGTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTc < 1:611374/149‑1 (MQ=255)
gTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGt < 1:132282/103‑1 (MQ=255)
gTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGt > 2:132282/1‑103 (MQ=255)
tGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGc < 2:335638/149‑1 (MQ=255)
cGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGt > 2:453072/1‑149 (MQ=255)
aTCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGa > 1:723905/1‑149 (MQ=255)
tCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGAc > 1:148104/1‑149 (MQ=255)
cAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTa < 2:378662/149‑1 (MQ=255)
gacgacGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCCCCACAGCAACAAGAGGAAGCGGTTCGACGCTATCca < 2:673284/149‑1 (MQ=255)
gacgGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCcagca < 2:437863/149‑1 (MQ=255)
acgGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCcagcag > 1:564409/1‑149 (MQ=255)
cgGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCagcagc > 1:355526/1‑149 (MQ=255)
cGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATa < 2:444393/149‑1 (MQ=255)
gTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTTTCCAGCAGCATAc < 1:10536/149‑1 (MQ=255)
aaaaaTAAGGGCGTAATCCCAGGTCCGCCAGCAATGCCGCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATActt < 2:445610/148‑1 (MQ=255)
ataagGGCGGAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GCTGGCGCTTTAACTCCCCGTTCCTACGGCCAGTGGGCGACGACCATGCCAACTTCTCACCACATCAACAACAGGAAGCGGCTCGACGCTATCCAGCCGCAAACTCCTTa < 2:817125/149‑1 (MQ=255)
atGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCCTACTTCTTACTg > 1:513152/1‑149 (MQ=255)
tAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGTTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTg > 2:214178/1‑149 (MQ=255)
tCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGttt > 1:386489/1‑149 (MQ=255)
ccAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGttttt < 1:486817/149‑1 (MQ=255)
ccAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACCGCTTCTGttttt > 2:187038/1‑149 (MQ=255)
aGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTc > 1:755410/1‑149 (MQ=255)
gATGGCCCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCga < 1:83352/149‑1 (MQ=255)
|
CCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGC‑GATGGCGCTTTCACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGA > NC_000913_3_hsa_tpiA/2817037‑2817307
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
