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 |
|
A25 F111 I0 R1
|
33 |
34.4 |
1317450 |
90.1% |
1187022 |
142.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,352,751 |
C→T |
41.9% |
R293H (CGT→CAT) |
sapD ← |
putrescine ABC exporter ATP binding protein SapD |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,352,751 | 0 | C | T | 41.9%
| 9.6
/ 24.7
| 30 | R293H (CGT→CAT) | sapD | putrescine ABC exporter ATP binding protein SapD |
| Reads supporting (aligned to +/- strand): ref base C (8/9); new base T (6/6); total (15/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.36e-01 |
AGCAGCGTTTCGATCATCTCACTCTTTCTCCATGTTCAGCGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGGATGATGTGGCATCGTC > NC_000913/1352618‑1352888
|
agcagcGTTTCGATCATCTCACTCTTTCTCCATGTTCAGCGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGATGACAACCaa < 1:233477/143‑1 (MQ=255)
gcagcGTTTCGATCATCTCACTCTTTCTCCATGTTCAGCGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCACTGTGGCCCCAGATGACAACCCAt > 2:70219/1‑143 (MQ=255)
gcagcGTTTCGATCATCTCACTCTTTCTCCATGTTCAGCGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGATGACAACCAAt > 2:601236/1‑143 (MQ=255)
tCGATCATCTCACTCTTTCTCCATGTTCAGCGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACt < 2:187309/143‑1 (MQ=255)
gATCATCTCACTCTTTCTCCATGTTCAGCGGGAAACGCCAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGATGACAACCAATCGGTAACTGt < 1:140588/143‑1 (MQ=255)
ttCTCCATGTTCAGCGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGGTCCCGCAGTGGGAt > 2:623447/1‑143 (MQ=255)
cATGTTCAGCGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCCATCGGTAGCTGTTTCAGCAGTGGGATAgcgc > 2:3560/1‑143 (MQ=255)
cATGTGCAGGGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAGCGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCTGTAACTGTTCCAGCAGTGGGATAgcgc < 1:285851/143‑1 (MQ=255)
gTTCAGCGGGAAATGCCAGGCATAGAGATGATTTTTCGCCCCCGTCAAACTTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGATGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCgg < 1:506279/143‑1 (MQ=255)
cGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGATGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCg > 1:568076/1‑143 (MQ=255)
caaaTGACAGGCAGAGAGGTGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTAt < 2:1801/142‑1 (MQ=255)
aaaTGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTGCCAGCAGTGGGCTAGCGCCGGGCACCGTCtt > 2:651369/1‑143 (MQ=255)
tGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAAACTGGAAACAGAGCGCGACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAg > 1:150324/1‑143 (MQ=255)
aTAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCAGCCACCGTATTGAGGCGACttt > 1:117106/1‑143 (MQ=255)
gatTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGATGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGc < 1:601236/143‑1 (MQ=255)
gatTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCCATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGCCTTTTATGCggg > 1:589840/1‑142 (MQ=255)
ttttttCGCCGCCCTCAAGCTTGGCGTCACATTGCATTCTCGTTGTGCGTACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCa < 2:359181/142‑1 (MQ=255)
aCGTGGCCTCACCATGCATTCTCGTTGTGCATCCGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTg < 1:578263/143‑1 (MQ=255)
cgccgCGTCACACTGCAGTCGCGCTGTGCATACGGGCAACGGGGCCCCACACGACAACCAGTCGGTAACTGTTCCAGCAGTGGGAGAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTgg < 1:484092/139‑1 (MQ=255)
gTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGATGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGACCACGTTTTTGCGGCATCGCGCTGCCGAAGTCTGGTATcgc > 1:649834/1‑143 (MQ=255)
gtGCACTCTCGTTGTGCATACGGGCAACGTGGCCACCGGCGACTGGCTATCGGTAACGGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGAt < 2:637128/142‑1 (MQ=255)
gCATTCTCGTGGTGCATACGGGCACCGTGGCCCCAGATGACAACCAATCGGCAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCa < 2:514912/143‑1 (MQ=255)
cATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCGGGCGCAGTGTGGTATCGCGCGGATcgg > 1:250418/1‑141 (MQ=255)
tctcGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGCATCGAGGCGACTTTTGTGCGGCATCGCGCTGCCGACGTCTGGTATCGCGCGGATgcgcgc > 2:395786/1‑143 (MQ=255)
tcGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCt < 2:104976/143‑1 (MQ=255)
ggggtgCATACGGGCAACGGGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTgg < 2:547600/140‑1 (MQ=255)
gggCAACGGGGCCCCAGATCACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGgatg < 1:603389/143‑1 (MQ=255)
ggCAACGTGGCCCCAGATGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCCGCGCCTGGTTAGAAtgatga > 1:86831/1‑143 (MQ=255)
ccccAGATGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTCAGGCGACTTTTATGCGGCATCGCGCTGCCGCCGTCTGGTATGGCGCGGATCAGCGCCTCGGTATAAGGATGATGTGGCATCg > 2:356236/1‑143 (MQ=255)
ccAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGACGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGGATGATGTGGCATCGTc > 1:301877/1‑143 (MQ=255)
|
AGCAGCGTTTCGATCATCTCACTCTTTCTCCATGTTCAGCGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGGATGATGTGGCATCGTC > NC_000913/1352618‑1352888
|
| 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
