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 |
|
A1 F28 I1 R1
|
163 |
52.9 |
1786516 |
99.3% |
1774010 |
139.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,859,730 |
G→A |
A167V (GCG→GTG) |
ydjK ← |
putative transporter YdjK |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,859,730 | 0 | G | A | 90.5%
| 53.3
/ ‑0.9
| 21 | A167V (GCG→GTG) | ydjK | putative transporter YdjK |
| Reads supporting (aligned to +/- strand): ref base G (1/1); new base A (11/8); total (12/9) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.55e-01 |
CCGCGCGATTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCAGGGATAAGCAGTTGTACCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCGCTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTGAAACCAGCAAACAGCGTAACCAGTAAAGCTCCCAGCCCAACTCC > NC_000913/1859592‑1859866
|
ccGCGCGATTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCAGGGATAAGCAGTTGTACCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCGc > 1:575600/1‑140 (MQ=255)
gcgcgATTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCAGGGATAAGCAGTTGTACCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCACTa > 2:743095/1‑140 (MQ=255)
gcgcgATCCCAGCCGGGGGGGGAATTAAGAAAAGTGGCGCCGGGCCGGCGCGGTAGAAAAAAGCAAAAATATGGGGGGAAAAAGCAGTTGTCCCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCGCTa < 2:575600/140‑1 (MQ=255)
cgcgATTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCAGGGATAAGCAGTTGTACCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCACTAt > 1:418637/1‑140 (MQ=255)
aTTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCAGGGATAAGCAGTTGTACCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCACTATCAAt > 2:258361/1‑140 (MQ=255)
gTAGCTATAAGCAAAATTATGGAGGGGAAAAGCATTTGTCCCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGa < 1:212882/140‑1 (MQ=255)
gaGGGAAAAGCATTTGTCCCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCg < 1:14841/139‑1 (MQ=255)
aTAAGCAGTTGTACCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCat > 2:628520/1‑140 (MQ=255)
aaGCAGTTGTACCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCatat > 1:447695/1‑140 (MQ=255)
gTACCCGCCAGTTCCCCTCTGCACTAAACAACGGCGTGGGGCCCCTGACTATTAATTAACAGAGCGGATTTGACCAGGTGCCAATAAAGGAAACCCCACTTGACCACGTTCCACGATTTTTTCCGGGCATATATTCGGTg > 2:382624/1‑140 (MQ=255)
gTACCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTg > 1:228784/1‑140 (MQ=255)
tccccGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTGa < 1:477448/138‑1 (MQ=255)
aCCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTGaa > 2:178949/1‑140 (MQ=255)
ttCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTGAAACCAGCaaa > 2:85863/1‑140 (MQ=255)
cctctGCACTAATCAGCGGCGTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTGAAACCAGCAAACAGc < 1:382624/139‑1 (MQ=255)
tctGCACTAATCAGCGGCGTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTGAAACCAGCAAACAGCGt < 1:743095/140‑1 (MQ=255)
aTCAGCGGCGTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTGAAACCAGCAAACAGCGTAACCAGTaa > 1:447213/1‑140 (MQ=255)
aGCGGCGTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTGAAACCAGCAAACAGCGTAACCAGTAAAGc > 2:564115/1‑140 (MQ=255)
aGCGGCGTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTGAAACCAGCAAACAGCGTAACCAGTAAAGc > 1:608438/1‑140 (MQ=255)
ggcgTGAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTGAAACCAGCAAACAGCGTAACCAGTAAAGCTcc < 1:85863/140‑1 (MQ=255)
gAGTCCCATCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTGAAACCAGCAAACAGCGTAACCAGTAAAGCTCCCAGcc < 1:258361/140‑1 (MQ=255)
aTCACTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTGAAACCAGCAAACAGCGTAACCAGTAAAGCTCCCAGCCCAACTcc < 2:228784/140‑1 (MQ=255)
|
CCGCGCGATTCCAGCCAGCGCGGGGATTCAGGAAAGTAGCGCCAGGCCAGCGCCGTAGCGATAAGCGACAATATTGCAGGGATAAGCAGTTGTACCCGCCAGTTCCACTCTGCACTAATCAGCGGCGTGAGTCCCATCGCTATCAATGAACAGAGCGGATATGACCAGTTGCCAATAAAGGAAACCCGACTTGACCACGTTCCACGATTTCTACCGGGCATATATTCGGTGAAACCAGCAAACAGCGTAACCAGTAAAGCTCCCAGCCCAACTCC > NC_000913/1859592‑1859866
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
