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 F1 I1 R1
|
81 |
47.9 |
2225048 |
94.8% |
2109345 |
113.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,771,806 |
A→T |
intergenic (+191/+196) |
yfjT → / ← yfjU |
CP4‑57 prophage, putative periplasmic protein/CP4‑57 prophage, conserved protein,Phage or Prophage Related |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,771,806 | 0 | A | T | 96.5%
| 196.0
/ ‑0.8
| 58 | intergenic (+191/+196) | yfjT/yfjU | CP4‑57 prophage, putative periplasmic protein/CP4‑57 prophage, conserved protein,Phage or Prophage Related |
| Reads supporting (aligned to +/- strand): ref base A (1/1); new base T (24/32); total (25/33) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.37e-01 |
TTCTCCTTAATCTCCAGAGGTAGGCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGATCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGATATGAATGAATACTGCGGATATCAAC > NC_000913/2771676‑2771923
|
ttCTCCTTAATCTCCAGAGGTAGGCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACtttt < 2:435849/139‑1 (MQ=255)
tctcCTTAATCTCCAGAGGTAGGCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACttttt > 1:891223/1‑139 (MQ=255)
cTTAATCTCCAGAGGTAGGCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTc > 2:421719/1‑139 (MQ=255)
tAATCTCCAGAGGTAGGCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTa < 1:906098/139‑1 (MQ=255)
ctcCAGAGGTAGGCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCATTTTTTGGTCTAAGCg < 1:740748/139‑1 (MQ=255)
ctcCAGAGGTAGGCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCg < 2:935379/139‑1 (MQ=255)
ctcCAGAGGTAGGCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCg < 2:891223/139‑1 (MQ=255)
gTAGGCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTc < 2:863977/139‑1 (MQ=255)
ggCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACttt > 2:102784/1‑116 (MQ=255)
ggCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACttt < 1:102784/116‑1 (MQ=255)
ggCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGt < 2:1088564/133‑1 (MQ=255)
ggCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGt > 1:1088564/1‑133 (MQ=255)
ggCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCata > 1:126428/1‑139 (MQ=255)
ccACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATg < 2:126428/139‑1 (MQ=255)
cGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTc < 1:370050/131‑1 (MQ=255)
cGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTc > 2:370050/1‑131 (MQ=255)
tACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCaa < 1:421719/139‑1 (MQ=255)
aTGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATa < 1:117949/139‑1 (MQ=255)
aGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAAc > 2:1078526/1‑139 (MQ=255)
aGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGATCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAAc > 1:426468/1‑139 (MQ=255)
tGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATgag > 2:425382/1‑139 (MQ=255)
tGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATgag > 1:440545/1‑139 (MQ=255)
tGGTCAGTTTATTACAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATgag > 1:743689/1‑139 (MQ=255)
ggTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGt < 2:280232/91‑1 (MQ=255)
ggTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGt > 1:280232/1‑91 (MQ=255)
ggTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCat < 2:467288/108‑1 (MQ=255)
ggTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCat > 1:467288/1‑108 (MQ=255)
ggTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATgaga < 2:919683/139‑1 (MQ=255)
tCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTTCTGTTCACTTTTTGGTCTAAGCg > 1:338431/1‑96 (MQ=255)
tCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCg < 2:338431/96‑1 (MQ=255)
aGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGa > 2:885259/1‑139 (MQ=255)
aGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGa < 2:241161/139‑1 (MQ=255)
ttttttGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCAttaaaattaaaa < 1:363149/139‑1 (MQ=255)
tttttGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTaaaaa > 2:519509/1‑139 (MQ=255)
tttGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGATCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGa < 2:426468/139‑1 (MQ=255)
tGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGata < 1:885259/139‑1 (MQ=255)
tGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGata < 1:620110/139‑1 (MQ=255)
tAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCg > 1:92732/1‑59 (MQ=255)
tAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCg < 2:92732/59‑1 (MQ=255)
cGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGt > 2:517796/1‑57 (MQ=255)
cGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGt < 1:517796/57‑1 (MQ=255)
gCTGTGAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGATATGAATGAATACTGc < 1:1078526/139‑1 (MQ=255)
tgAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCgtt < 1:748548/49‑3 (MQ=255)
tgAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCgtt > 2:748548/1‑47 (MQ=38)
tgAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCg > 1:840845/1‑47 (MQ=255)
tgAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCg < 2:840845/47‑1 (MQ=255)
tgAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGata > 2:504996/1‑121 (MQ=255)
tgAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGata < 1:504996/121‑1 (MQ=255)
tgAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGATatgaat > 2:797886/1‑126 (MQ=255)
tgAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGATatgaat < 1:797886/126‑1 (MQ=255)
tgAGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGATATGAATGAATACTGCGGat < 2:743689/139‑1 (MQ=255)
aGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATgaga > 2:898611/1‑86 (MQ=255)
aGCGCAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATgaga < 1:898611/86‑1 (MQ=255)
cAGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGATATGAATGAATACTGCGGATATCAAc < 1:519509/139‑1 (MQ=255)
aGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCata < 1:1099709/51‑1 (MQ=255)
aGGCTGTGTTAAAACTCCTGTTCACTTTTTGGTCTAAGCGATGGTTTCata > 2:1099709/1‑51 (MQ=255)
ccTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGata > 2:345340/1‑98 (MQ=255)
ccTGTTCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGata < 1:345340/98‑1 (MQ=255)
|
TTCTCCTTAATCTCCAGAGGTAGGCCACGTACTTTCGAACGATGAGCGCAGTGGTCAGTTTTTTTCAGATATATTTATCTTTTTTTGGCTGTAAGCTCCGCTGTGAGCGCAGGCTGTGTTAAAACTCCTGATCACTTTTTGGTCTAAGCGATGGTTTCATATGATCAACCATTCTTGATAAACCCATGAGACGGACTAACTTTTTCATTAAAATTAAAAAGATATGAATGAATACTGCGGATATCAAC > NC_000913/2771676‑2771923
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
