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 F28 I1 R1
|
164 |
66.7 |
2276140 |
99.1% |
2255654 |
138.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,237,401 |
G→A |
V31I (GTA→ATA) |
ygjR → |
putative oxidoreductase YgjR |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,237,401 | 0 | G | A | 96.9%
| 107.8
/ ‑3.8
| 32 | V31I (GTA→ATA) | ygjR | putative oxidoreductase YgjR |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (18/13); minor base T (0/1); total (18/14) |
| Fisher's exact test for biased strand distribution p-value = 4.38e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGTGCTACATTGACGACAGAATCCCTTTATGGAGTATCCACGCGTTATGATACGTTTCGCTGTGATTGGTACGAACTGGATCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCGTATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGACGCGGTGTATATTGCCAGCCCGAATTCCC > NC_000913/3237265‑3237533
|
cGTGCTACATTGACGACAGAATCCCTTTATGGAGTATCCACGCGTTATGATACGTTTCGCTGTGATTGGTACGAACTGGATCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCatat > 2:310149/1‑140 (MQ=255)
acgacAGAATCCCTTTATGGAGTATCCACGCGTTATGATACGTTTCGCTGTGATTGGTACGAACTGGATCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGcc > 2:783644/1‑140 (MQ=255)
aGAATCCCTTTATGGAGTATCCACGCGTTATGATACGTTTCGCTGTGATTGGTACGAACTGGATCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGaa > 1:624864/1‑140 (MQ=255)
cACGCGTTATGATGCGTTTCGCTGTGATTGGTACGAACTGGATCCCCCGCCAGTTCGTCGAGGCCGCCCATGAGGGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAAt < 2:879351/140‑1 (MQ=255)
aCGCGTTATGATACGTTTCGCTGTGATTGGTACGAACTGGATCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATg > 1:539788/1‑140 (MQ=255)
tACGTTTCGCTGTGATTGGTACGAACTGGATCCCTCGCCAGTTCGTCGGGCCCCCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTc < 2:462243/140‑1 (MQ=255)
gTTTCGCTGTGATTGGTACGAACTGGATCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCTTATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAg < 2:109149/140‑1 (MQ=255)
ttCGCTGTGATTGGTACGAACTGGATCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCa > 1:462243/1‑140 (MQ=255)
ttCGCTGTGATTGGTACGAACTGGATCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCa > 1:894753/1‑140 (MQ=255)
cGCTGTGATTGGTACGAACTGGATCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATc > 1:573567/1‑140 (MQ=255)
tGGTACGAACTGGATCACCCGCCAGTTCGGCGAGGCCCCCCATGAGGGCGGAAAATAAAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCt < 2:624864/140‑1 (MQ=255)
gAACTGGATCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTgg > 1:238448/1‑140 (MQ=255)
gAACTGGATCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTgg > 2:58961/1‑140 (MQ=255)
aCTGGATCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGaa > 2:396354/1‑140 (MQ=255)
aTCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGAt < 2:894753/140‑1 (MQ=255)
cTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCg < 1:97112/140‑1 (MQ=255)
gCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGaa > 1:717824/1‑140 (MQ=255)
gCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGaa > 1:281434/1‑140 (MQ=255)
gCCAGTGCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCAAGCATCTGTTTCCCTCGCTGGAAGCGATGGCGGaa > 2:129786/1‑140 (MQ=255)
cAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAg > 1:1072014/1‑140 (MQ=255)
gtcgAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGa > 1:91037/1‑124 (MQ=255)
gtcgAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGa < 2:91037/124‑1 (MQ=255)
cccccccATGAGGGCGGAAAATAAAAGTAAACCGCCATATATTCCCGCAGCCTTGAACAGG‑CCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGAc < 2:942963/136‑1 (MQ=255)
ccccccATGAGGGCGGTAAATACATGTTAGCCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGAc < 2:913822/137‑1 (MQ=255)
cccATGAGAGCGGAAAATACAATTAAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGAcgcg < 2:195915/140‑1 (MQ=255)
tGAGAGCGGTAAATACAAGTTAACCGCCATATATTCCCGTAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGACGCGgtgt > 1:1099549/1‑140 (MQ=255)
cGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGACGCGGTGTatatct > 1:966271/1‑138 (MQ=255)
cGGTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGACGCGGTGTATATTg > 1:357763/1‑140 (MQ=255)
gTAAATACAAGTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGACGCGGTGTATATTGcc < 2:717824/140‑1 (MQ=255)
gTAAATACAAGTAAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGACGCGGTGTATATTGcc < 1:310149/140‑1 (MQ=255)
gTTAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGACGCGGTGTATATTGCCAGCCCGAAtt > 2:319256/1‑140 (MQ=255)
ttAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGACGCGGTGTATATTGCCAGCCCGAATTc < 1:396354/140‑1 (MQ=255)
tAACCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGACGCGGTGTATATTGCCAGCCCGAATTcc < 2:238448/140‑1 (MQ=255)
aaCCGCCATATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGACGCGGTGTATATTGCCAGCCCGAATTccc > 2:881487/1‑140 (MQ=255)
|
CGTGCTACATTGACGACAGAATCCCTTTATGGAGTATCCACGCGTTATGATACGTTTCGCTGTGATTGGTACGAACTGGATCACTCGCCAGTTCGTCGAGGCCGCCCATGAGAGCGGTAAATACAAGTTAACCGCCGTATATTCCCGCAGCCTTGAACAGGCCCAGCACTTCGCCAATGATTTTTCTGTCGAGCATCTGTTTACCTCGCTGGAAGCGATGGCGGAAAGCGATGCCATTGACGCGGTGTATATTGCCAGCCCGAATTCCC > NC_000913/3237265‑3237533
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
