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 |
|
A21 F5 I0 R1
|
24 |
41.2 |
1474486 |
89.7% |
1322613 |
148.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913_3_pae_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_pae_tpiA | 2,817,170 | 0 | C | A | 100.0%
| 98.0
/ ‑6.7
| 35 | E112* (GAA→TAA) | yqaB | fructose‑1‑P and 6‑phosphogluconate phosphatase |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base A (15/18); total (16/19) |
| 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. |
GTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTCACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCGGCC > NC_000913_3_pae_tpiA/2817029‑2817315
|
gTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTTAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTcccc < 1:339291/149‑1 (MQ=255)
gTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCACCGATGGCGCTTTAACTcccc > 2:205774/1‑149 (MQ=255)
aCGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTcc > 1:193425/1‑149 (MQ=255)
gCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCACGTACGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTa > 1:557098/1‑149 (MQ=255)
ccATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACa < 1:296772/149‑1 (MQ=255)
taTACGCTGGGCGTACAACGAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTTAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGATTTAACTCCCCGTTCCTACAg < 2:126884/148‑1 (MQ=255)
tGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTgg > 1:641994/1‑149 (MQ=255)
tGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTgg > 2:627680/1‑149 (MQ=255)
aaaaaTGTGTCTTGGGCGGGTGTTGGCTGTTTGACGTGATCGGCATCCACCACTGCGTCAAAATAATGGCGTAATACCAGGGGCGCCAGCAATGGCTCAGCGATGGCGATTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATg < 2:116455/149‑1 (MQ=255)
aaaaTGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGTCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGc > 1:577909/1‑149 (MQ=255)
aTGTGTCTGGGGCGGGTTTAGGGTGTGTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCaa < 1:149597/149‑1 (MQ=255)
aTGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCaa < 1:227650/149‑1 (MQ=255)
gacTGGCGCGGGTTTATGGAGTTTGACGTGATCGGCAGCTACGACGGCGGCAAAATAATGCCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGATTTAACTCCCCGTTCCTACAGCCATTGGGCGTCGCCCATGCCAACttt > 2:30527/3‑149 (MQ=255)
cgcgGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTcacca > 1:640360/1‑149 (MQ=255)
gtgtTTGCCGCGTCCGGCAGCGAGGCCGGCGTCAAAAGAATGCCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGTTGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAagag < 1:227723/149‑1 (MQ=255)
tgtTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAgg > 1:443287/1‑149 (MQ=255)
ttGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAg < 1:66410/149‑1 (MQ=255)
ctgTGATCGGGAGCGACGACGTCGCCAAAATAACGGCGTAATCCCAGGGGCGCCAGCCATGCCTCAGCGATGGCGCTGTCACCCCCCCTTCCTACAGCCATTGGGCGACGACCCTGCCAACTTTTCACCACATCAACAAGAGGAAGCgg < 2:197992/147‑1 (MQ=255)
cGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGt > 1:3896/1‑149 (MQ=255)
tCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGAc < 1:244259/149‑1 (MQ=255)
gCAGCGACGACGGCGTCAAAATGATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCt < 2:100395/149‑1 (MQ=255)
gacgacGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTGACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCGAACTTTTCACGCCATCAACCAGAAGAAGCGGGTCGGCCCTAGCca > 1:41074/1‑149 (MQ=255)
ataatGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTa < 1:535724/149‑1 (MQ=255)
ataatGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTa < 1:416640/149‑1 (MQ=255)
tCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGttt < 1:272087/149‑1 (MQ=255)
ccAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGttttt > 1:143264/1‑149 (MQ=255)
gcCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCCTACTTCTTACTGCTTCTGTTTTTTCACgcgc > 1:266532/1‑149 (MQ=255)
gacAGTAATGCCTCAGCGATGGCGCTTTAACTGCCCGTTCCTACAGCCATTGTGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAATCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACgcgc < 2:626119/147‑1 (MQ=255)
cAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGGCGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTACCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTa > 1:142250/1‑149 (MQ=255)
gCAATGCCTCATCGATGGCGATTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAAc < 2:45039/149‑1 (MQ=255)
cTCAGCGATGGCGCTTTAACCCCCCGTTCCGACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTCCTTTCGTCATCTGGGTTTTCACGCGCTAACGCATGCg < 2:526901/149‑1 (MQ=255)
aGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGt < 2:613185/149‑1 (MQ=255)
aTGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCgag > 1:396070/1‑149 (MQ=255)
cTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAAGTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACCCATGCGGGTCGAGATCGGc < 2:620046/149‑1 (MQ=255)
tttAACTCCCCGTTCCTACAACCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCCGcc > 2:73603/1‑149 (MQ=255)
|
GTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTCACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCGGCC > NC_000913_3_pae_tpiA/2817029‑2817315
|
| 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
