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 F28 I1 R1
|
182 |
57.1 |
1926220 |
99.1% |
1908884 |
138.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,809,415 |
T→C |
pseudogene (1100/1178 nt) |
ygaY → |
putative transporter YgaY, N‑terminal fragment |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,809,415 | 0 | T | C | 100.0%
| 76.1
/ NA
| 23 | pseudogene (1100/1178 nt) | ygaY | putative transporter YgaY, N‑terminal fragment |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (3/20); total (3/20) |
AATTTATCGGATACATCCTGATGCGCGCAATCGCCTGACCGCAGGTTACATGACTAGCTACTTTATTGGCGGTGCCGCCGGTTCGCTAATTTCAGCCTCAGCCTGGCAACATGGCGGTTGGGCTGGCGTTTGTCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCGTGGCTTTACACTTATAAGGGTGTTAAGAAGCCCATCAG > NC_000913/2809283‑2809551
|
aaTTTATCGGATACATCCTGATGCGCGCAATCGCCTGACCGCAGGTTACATGACTAGCTACTTTATTGGCGGTGCCGCCGGGTCGCTAATTTCAGCCTCAGCCTGGCAACATGGCGGGTGGGGTGGCGGTTGGctgggtg > 1:598652/1‑140 (MQ=255)
tATCGGATACATCCTGATGCGCGCAATCGCCTGACCGCAGGTTACATGACTAGCTACTTTATTGGCGGTGCCGCCGGTTCGCTAATTTCAGCCTCAGCCTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGgcgc < 1:98500/140‑1 (MQ=255)
gATACATCCTGATGCGCGCAATCGCCTGACCGCAGGTTACATGACTAGCTACTTTATTGGCGGTGCCGCCGGTTCGCTAATTTCGGCCTCAGCCTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGcgacga < 2:870953/140‑1 (MQ=255)
aCATCCTGATGCGCGCAATCGCCTGACCGCAGGTTACATGACTAGCTACTTTATTGGCGGTGCCGCCGGTTCGCTAATTTCAGCCTCAGCCTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTg < 1:657905/140‑1 (MQ=255)
cATCCTGATGCGCGCAATCGCCTGACCGCAGGTTACATGACTAGCTACTTTATTGGCGGTGCCGCCGGTTCGCTAATTTCAGCCTCAGCCTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGc < 1:496524/140‑1 (MQ=255)
cATCCTGATGCGCGCAATCGCCTGACCGCAGGTTACATGACTAGCTACTTTATTGGCGGTGCCGCCGGGTCGCTAATTTCAGCCCCAGCCCGGCAACATGGCGGGTGGGGCGGGGGTTTCCTCGCTGGCgcggcgggttc > 2:341787/1‑135 (MQ=255)
tCCTGATGCGCGCAATCGCCTGACCGCAGGTTACATGACTAGCTACTTTATTGGCGGTGCCGCCGGTTCGCTAATTTCAGCCTCAGCCTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGccc < 1:912310/140‑1 (MQ=255)
ccTGATGCGCGCAATCGCCTGACCGCAGGTTACATGACTAGCTACTTTATTGGCGGTGCCGCCGGTTCGCTAATTTCAGCCTCAGCCTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCt < 1:880980/140‑1 (MQ=255)
aTGCGCGCAATCGCCTGACCGCAGGTTACATGACTAGCTACTTTATTGGCGGTGCCGCCGGTTCGCTAATTTCAGCCTCAGCCTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGtt < 1:529605/140‑1 (MQ=255)
cATGACTAGCTACTTTATTGGCGGTGCCGCCGGTTCGCTAATTTCAGCCTCAGCCTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTc < 1:128735/140‑1 (MQ=255)
gTGCCCCCGGTTCGCTAATTTCAGCCTCCGCCTTGCAACATGGCGGGTGGGGGGGGGGTTGCCTCGGTTGGGCGGCGAGTTGCCCCGGTTAATTTTTTGGGTTGTGGGGGGGGTTTTTTTCTCCGGGAAGCGCCAAATTa > 2:214815/1‑140 (MQ=255)
cgccgGTTCGCTAATTTCAGCCTCAGCCTGGCAACATGGCGGGTGGGGTGGGGGTTGGCCGGGTGGCGCGGCGG‑TTGCCCTGGGTTACTTTCTGGGCTGGTGGGGGGGGTTTTATCGTCAGGGAGGCGCAAAATAAACaa > 2:14366/1‑140 (MQ=255)
ttCGCTAATTTCAGCCTCAGCCTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCa < 1:53327/140‑1 (MQ=255)
gCTAATTTCAGCCTCAGCCTGGCAACATGGCGGGTGGGCTGGGGTTTGCCTGGCTGGGGCGACGG‑TTGCCCCGGTTAACTTACTGGTCTTGTGGCGAGGGTTTCATCGTCAGGAAACCGGAAATTAAGCAATCAGCaaac > 2:548669/1‑138 (MQ=255)
cTAATTTCAGCCTCAGCCTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCg > 1:534713/1‑140 (MQ=255)
cTAATTTCAGCCTCAGCCTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCg > 1:519368/1‑140 (MQ=255)
tcagcctcagccTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCg < 2:546624/140‑1 (MQ=255)
tcagcctcagccTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCg < 1:791386/140‑1 (MQ=255)
tcagcctcagccTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCg < 1:725336/140‑1 (MQ=255)
tcagcctcagccTGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCg < 1:334948/140‑1 (MQ=255)
tcagcctGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCGTGGCtt < 2:598652/140‑1 (MQ=255)
agcctGGCAACATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCGTGGCTTTa < 2:450244/140‑1 (MQ=255)
acagcATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCGTGGCTTTACACTta < 1:946859/136‑1 (MQ=255)
aCATGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCGTGGCTTTACACTTATaa < 1:14366/140‑1 (MQ=255)
aTGGCGGTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCGTGGCTTTACACTTATAAgg < 1:214815/140‑1 (MQ=255)
ggTTGGGCTGGCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGGTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCGTGGCTTTACACTTATAAGGGTGtt > 2:93716/1‑140 (MQ=255)
ggCTGGCGTTTGCCTGGCTGGCGCGGCGA‑TTGCCCTGGTTAACTTAATCGTCTGGTGGCGAGGTTTTCATCGTCAGGGAGGCGGAAATTTAGCAATCAGGAACCGTTTTCGGGGCTTTACACTTATAAGGGTGtttttgt > 2:946859/1‑135 (MQ=255)
ggCGTTTGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCGTGGCTTTACACTTATAAGGGTGTTAAGAAGccc < 1:750368/140‑1 (MQ=255)
ttGCCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCGTGGCTTTACACTTATAAGGGTGTTAAGAAGCCCATCAg < 1:718451/140‑1 (MQ=255)
|
AATTTATCGGATACATCCTGATGCGCGCAATCGCCTGACCGCAGGTTACATGACTAGCTACTTTATTGGCGGTGCCGCCGGTTCGCTAATTTCAGCCTCAGCCTGGCAACATGGCGGTTGGGCTGGCGTTTGTCTGGCTGGCGCGACGA‑TTGCCCTGGTTAACTTACTGGTCTGGTGGCGAGGTTTTCATCGTCAGGAAGCCGCAAATTAAGCAATCAGCAACCGTTTTCGTGGCTTTACACTTATAAGGGTGTTAAGAAGCCCATCAG > NC_000913/2809283‑2809551
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
