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 |
|
A5 F20 I0 R1
|
33 |
26.4 |
1163560 |
84.9% |
987862 |
142.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
756,792 |
G→T |
68.6% |
E296* (GAA→TAA) |
sdhA → |
succinate:quinone oxidoreductase, FAD binding protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 756,792 | 0 | G | T | 68.6%
| 6.6
/ 14.0
| 23 | E296* (GAA→TAA) | sdhA | succinate:quinone oxidoreductase, FAD binding protein |
| Reads supporting (aligned to +/- strand): ref base G (3/4); new base T (5/11); total (8/15) |
| Fisher's exact test for biased strand distribution p-value = 6.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.23e-01 |
GCGTACTGGTCACCGAAGGTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCGAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCTTTCCCGTACCTTCGCTCACGTCGATCCG > NC_000913/756655‑756932
|
ccGTACTGGTCACCGAAGGTTGCCGTGGCGAAGGCGGTTATCTGCTGAACGCACATGGCGAACGTTTTATGGAGCGTTATGCGCAGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATc < 2:277842/142‑1 (MQ=255)
gAAGGTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCAGGCAGGCCGTAACGTAGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCgg > 1:302128/1‑143 (MQ=255)
cgTTGGCGTGCTGAAGGCGGGTAGCAGGGGAACAAACATGGCGAACGTGTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCtg < 1:329991/142‑1 (MQ=255)
tGCCGTGGTGAAAGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATACGCCGAACGCCAAAGGCCTGGCGGGCCGTCACGTGGTTGCGCGTTCCATCATGATGTAAGACCGACAAGGGCGCGGcggcgg > 2:464964/1‑138 (MQ=255)
cGGTTATCTGTTGAACAAATTTGGCGAACGTTTTTTGGAGCGTTATGCGCGTAACGCCAAAGACCTGGCGGGCGGTGACGTGGTTGCGCGTTCCATCATGATCGAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGc < 1:455531/143‑1 (MQ=255)
gggtagctgcggAACAAGCGGGGGGAACTTTTGCTGGAGCGTTATGCGCCGACCTCCAAAGGCCTGGCGGGGCGTGCCGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGcc < 2:516242/137‑1 (MQ=255)
gTTATCTGCTGAACAAACATGGCGAACGTTTTATGGTGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGGTGCGCGTTCCATCATGATCGAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCca < 1:331134/143‑1 (MQ=255)
gctgAACAAACATGGCTAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTGCATCATGATCTCAATGCGTTAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCga < 1:550733/143‑1 (MQ=255)
tgAACAAACATGGCGAACGTTTTATGGTGCTTTTTGTGTTGATCTTTTAAGTTCTGGTGGGCCGTGACGTGGTTGCGCGGGCCAGCATGATCGAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCgaaa < 1:158089/143‑1 (MQ=255)
aaaccgggCGAACGTTTTGTGGAGTGGTATGCGCCGAACGCCAGCTACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCAGGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCgaaactgaa < 2:180729/137‑1 (MQ=255)
gAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCCTGATCTAAATCCGTTAAGGTCGAGGCTGTGATGATCCGTGAGGGAAAAACGCaaaacaaaaacaatataa > 1:70618/1‑136 (MQ=255)
gAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCAGGCGGTCCGTGACGTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCAGTGGGGGGCACACGCgaaactgaaactgcaaca > 2:567067/1‑137 (MQ=255)
accGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGTGGGTCGTGACGTGGTTGCGCGTTTCATCATGATCTAAAGCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCAc < 1:105792/141‑1 (MQ=255)
ttttATGTAGCGTTATGCGCCGAACGCCAAAGTCCTGGCGGGCCGGGACGTGGTTGCGCGTTCCATCATGAGCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTgg < 1:345592/143‑1 (MQ=255)
tATGGAGCGTTATGCGCCGAACGCCAAAGTCCTGTTGGGTCGTGATGTGGTTGCGCGTTCCATCATGATCTAAAGCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTa < 1:540974/143‑1 (MQ=255)
ggAGCTTTATGCGCCGAACGCCAAAGTCCTGGCGGGTCGTGACGTGGTTGCGCGTTCCATCAAGATCTAAATCCGTGAAGGGCGCGGCGGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAaag < 1:375912/143‑1 (MQ=255)
ccGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCGAAATCCGTGAAGGTCGCGGCTGTGATTGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATc < 1:450980/143‑1 (MQ=255)
ggCCGTGATGTGTGTGCGCGTTCCATCATGATTTTACTCTTTGTAGGTCTCTGTTGTGATGGTCCGTTGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGa < 1:273583/143‑1 (MQ=255)
gTGGTTGCGCGTTCCATCATGATCTAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGCACAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGAAGCTTTCCCg > 2:63580/1‑143 (MQ=255)
ggTTGCGCGTTCCATCATGATCGAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGACACTGAAACTCGATCACCTGGGTAAAGAAGATCTCGAATACCGTCTGCCGGGAATCCTGGAGCTTTCCCGTa > 1:336071/1‑143 (MQ=255)
gcgTTCCATCATGATCTAAATCCCTTAAGTTCGCGGCTGTGGCGCGCCCAGAGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCTTTCCCGTACCTTCg < 1:413494/143‑1 (MQ=255)
tCGAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAACCTGAAACTCGATCACCTGGGTAAAGAAGTTATCGAATACAGTCTGCCGGGTAGCCTGGAGCTTTCACGTACCTTCGCTCACGTCGATCCg > 1:491280/1‑143 (MQ=255)
tCGAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGGCTGCCGGGTATCCTGGAGCTTTCCCGTACCTTCACTCACGTCGATCCg > 2:519158/1‑143 (MQ=255)
|
GCGTACTGGTCACCGAAGGTTGCCGTGGTGAAGGCGGTTATCTGCTGAACAAACATGGCGAACGTTTTATGGAGCGTTATGCGCCGAACGCCAAAGACCTGGCGGGCCGTGACGTGGTTGCGCGTTCCATCATGATCGAAATCCGTGAAGGTCGCGGCTGTGATGGTCCGTGGGGGCCACACGCGAAACTGAAACTCGATCACCTGGGTAAAGAAGTTCTCGAATCCCGTCTGCCGGGTATCCTGGAGCTTTCCCGTACCTTCGCTCACGTCGATCCG > NC_000913/756655‑756932
|
| 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
