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 F23 I0 R1
|
29 |
39.7 |
1391800 |
89.8% |
1249836 |
148.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913_3_hsa_tpiA |
2,817,170 |
C→A |
100% |
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 | 95.5%
| 92.1
/ ‑5.0
| 37 | E112* (GAA→TAA) | yqaB | fructose‑1‑P and 6‑phosphogluconate phosphatase |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base A (18/16); minor base T (1/1); total (20/17) |
| 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 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GTCGGTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTCACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCGGC > NC_000913_3_hsa_tpiA/2817025‑2817314
|
gTCGGTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCACTGCCTCAGCGATGGCGCTTTGACt > 2:371932/1‑149 (MQ=255)
cATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGAGCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAg > 1:309846/1‑149 (MQ=255)
gCTGCGCGCACAACAAAAATGTGTCAGGCGCGGGTTTATGGTGTTTGAAGTGATCGGCAGCGACGACGGCGGCAAAATAGAGGCGTAAACCAAGGTGGGCCAACAATGAAGCAACGCAGGCGCGTTAACTACCCATTCCTCGAGCCCtt > 2:68468/1‑149 (MQ=255)
acaacaAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGcgacga < 2:419292/149‑1 (MQ=255)
caacaaAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTTACTCCCCGTTCCTACAGCCATTGGGCgacgac > 2:248816/1‑149 (MQ=255)
caacaaAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCgacgac < 1:149415/149‑1 (MQ=255)
caaAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGAGGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCAt > 1:454445/1‑149 (MQ=255)
tCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACtttt > 2:43810/1‑149 (MQ=255)
cTGGCGCGGGTTTACGGTGATTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTACGCCAGCAATGCCTCACCGATGGCGCTTTAACTCCCCGTGCCTACAGCCATTGGGCGACGACCCTGCCAACTTTTc > 2:484883/1‑149 (MQ=255)
tGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTca < 1:640449/149‑1 (MQ=255)
gcgGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTcaccac > 1:4580/1‑149 (MQ=255)
ggTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACCTCAACAaga > 2:69594/1‑149 (MQ=255)
gtgtTTGACGTGATCGGCAGCGACGGCGGCGTCAAAATAATGGCGTAATGCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCGTTGGGCGACGACCATGCCAACTTTTCACCACATCAACCagag > 1:552425/1‑149 (MQ=255)
ttGATGTGAGCGGCAGTGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCAACGACCATGCCAACTGTTCACCACATCAACAAGAGGAAg < 1:486129/149‑1 (MQ=255)
aCGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCGGCACTGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCCACaagcggaagcgg > 1:135729/1‑149 (MQ=255)
cGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGt < 1:333467/149‑1 (MQ=255)
gggATCGGCAGCGACGACGGCGTCAAAATAATGGCGGAAGCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGtt < 1:184008/147‑1 (MQ=255)
aTCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCCGCGATGGCGCTTTAACCCCCCGTTCCTACAGCCCTTGGGCGACACCCATCCCAACTTTTCACCACATCACCCACAGGAAGCGGTTcca > 2:122683/1‑147 (MQ=255)
cgacgaCGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAGCAAGAGAAAGCGGTCCGACGCTATcc > 1:626472/1‑149 (MQ=255)
gacgacGGCGTCAAAATAATGGCGCAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCca < 2:204607/149‑1 (MQ=255)
ggcgacGTCAAAATAATGGAGACATTCTAGTTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCcagca < 1:505709/144‑1 (MQ=255)
gTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGAGGGCCGCGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCcagcagaagac > 1:335361/1‑144 (MQ=255)
aggCGTAATCCCACGTGCGCCAGCAATGCCTCAGCCATGTCGCCATATATCCCCGTTCCTACCGCCATTGGGCGACGCCCATGCCACCTCTGAACCCCCTCCAGCAGTGGAAGCGGTACAACCCTATCCACCAGACTACTCCTTACTGc > 2:36651/2‑149 (MQ=255)
cccAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGtttt < 1:622751/149‑1 (MQ=255)
cgcCAGCAATGCCCCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGCAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCAcgcg < 1:368753/149‑1 (MQ=255)
ggaaTGCCTCACCGATGGCGTTTTTGCTCCCCGTTCCTACAGCCATTCGGCGACGACCATGCCAACTTTTCACCACATCATCATTAGGAAGCTGTTCCACGCTAGCCAGCATCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAAc < 2:456513/147‑1 (MQ=255)
cAATGCCGCGGCGATGGCTCTTTAGCTCCCCGGTCCTGCGGCCAGTGGGCGAGGAACATGCCAACTTTTCACCACAGCAACATGAGGAAGCGGTGTGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACg < 2:117368/149‑1 (MQ=255)
aTGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACCGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCCCGCGCTAACGCa > 2:669395/1‑149 (MQ=255)
ccTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGACGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCCTGCGCTAACCCATGc > 2:638208/1‑149 (MQ=255)
cTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTGTCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTACCGCAGGCg > 2:590643/1‑149 (MQ=255)
cTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCg < 1:248816/149‑1 (MQ=255)
cTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCg > 1:213977/1‑149 (MQ=255)
taaggCTCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGTTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGTGTCga < 2:662975/146‑1 (MQ=255)
gATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCga < 1:14949/149‑1 (MQ=255)
gcTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCgg > 1:59326/1‑149 (MQ=255)
cTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCGGc < 1:198320/149‑1 (MQ=255)
cTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCGGc < 1:69594/149‑1 (MQ=255)
|
GTCGGTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTCACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCGGC > NC_000913_3_hsa_tpiA/2817025‑2817314
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
