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 |
|
A95 F1 I1 R1
|
16 |
38.4 |
2546724 |
96.0% |
2444855 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,886,204 |
G→A |
intergenic (‑34/+635) |
yobF ← / ← yebO |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,886,204 | 0 | G | A | 88.9%
| 175.4
/ 7.9
| 54 | intergenic (‑34/+635) | yobF/yebO | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (4/2); new base A (25/23); total (29/25) |
| Fisher's exact test for biased strand distribution p-value = 6.75e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAATCTCG > REL606/1886131‑1886272
|
cgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTAtt > 2:494730/1‑76 (MQ=255)
gtgtTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTa > 1:951588/1‑76 (MQ=255)
tgtTTACTCAGGANTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCtattat > 1:854508/1‑76 (MQ=255)
gtTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATc > 2:62271/1‑76 (MQ=255)
tACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATcaca > 1:344017/1‑76 (MQ=255)
tACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATcaca > 1:290209/1‑76 (MQ=255)
aCTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACAt > 1:824698/1‑76 (MQ=255)
cAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACa < 1:918379/76‑1 (MQ=255)
cAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACa < 2:961770/76‑1 (MQ=255)
ggACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAAc < 2:848035/76‑1 (MQ=255)
ggACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAAc < 2:70974/76‑1 (MQ=255)
cttcttTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGtt < 1:389511/76‑1 (MQ=255)
cttcttTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGtt < 1:674427/76‑1 (MQ=255)
tcttTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTaa < 1:804104/76‑1 (MQ=255)
cttTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAAt < 2:205490/76‑1 (MQ=255)
cttTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAAt > 2:412645/1‑76 (MQ=255)
tttACTGAAAATGCCACACATAAACAGAACTGTACTTCGTTTAACCCGAAATCTATTATCACATACAACGTTAAtt > 2:1141209/1‑76 (MQ=255)
tttACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAAtt < 2:165176/76‑1 (MQ=255)
ttACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTa > 1:175688/1‑76 (MQ=255)
tACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATCCAACGCTCATTAt > 1:151128/1‑76 (MQ=255)
tACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTAt > 1:1050029/1‑76 (MQ=255)
tACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTAt < 2:350017/76‑1 (MQ=255)
tACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTAt < 2:1066702/76‑1 (MQ=255)
aCTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATg > 1:638244/1‑76 (MQ=255)
aCTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATg > 1:1191176/1‑76 (MQ=255)
aCTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATg < 1:417789/76‑1 (MQ=255)
cTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATgg < 1:1004347/76‑1 (MQ=255)
tGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGc < 2:42706/76‑1 (MQ=255)
gAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCa > 2:667937/1‑76 (MQ=255)
aaaaTGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAATGTTAATTATGGCaa < 1:678789/76‑1 (MQ=255)
aaaaTGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCaa > 1:360391/1‑76 (MQ=255)
aaaTGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAg < 1:54356/76‑1 (MQ=255)
gCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCAt > 1:149802/1‑76 (MQ=255)
cacaTAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCAttttt > 2:151453/1‑76 (MQ=255)
cacaTAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCAttttt > 2:402098/1‑76 (MQ=255)
caTAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTaa < 1:1126884/76‑1 (MQ=255)
aTAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTaaa > 2:53017/1‑76 (MQ=255)
cAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGt < 2:32883/76‑1 (MQ=255)
gAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGtct < 2:560310/76‑1 (MQ=255)
aCTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCg > 2:834724/1‑76 (MQ=255)
aCTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCg < 1:192771/76‑1 (MQ=255)
cTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGa > 2:281182/1‑76 (MQ=255)
tGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGAt > 1:539678/1‑76 (MQ=255)
gTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATc > 1:592566/1‑76 (MQ=255)
tACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCa < 2:635781/76‑1 (MQ=255)
tACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCa < 1:310870/76‑1 (MQ=255)
aCCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAg > 1:1088362/1‑76 (MQ=255)
cTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGAc > 2:1056741/1‑76 (MQ=255)
ccGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACg < 2:394845/75‑1 (MQ=255)
cGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGc > 1:995875/1‑76 (MQ=255)
aaCCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACaaa > 1:1181976/1‑76 (MQ=255)
cccGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAAtc < 1:1105474/76‑1 (MQ=255)
cccGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAAtc < 1:802364/76‑1 (MQ=255)
cGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAAtctc > 2:1170635/1‑76 (MQ=255)
gAAATCTATTATCACATACAACGTTAATTATGGCATGCCATTTTTAAACATGTCTCGATCAGACGCACAAATCTCg > 2:1133784/1‑76 (MQ=255)
|
CGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAATCTCG > REL606/1886131‑1886272
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
