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 |
|
A80 F1 I1 R1
|
17 |
48.4 |
3161007 |
95.9% |
3031405 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,928,938 |
A→T |
Q241L (CAG→CTG) |
rho → |
transcription termination factor Rho |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,928,938 | 0 | A | T | 96.2%
| 203.4
/ ‑1.6
| 53 | Q241L (CAG→CTG) | rho | transcription termination factor Rho |
| Reads supporting (aligned to +/- strand): ref base A (0/2); new base T (25/26); total (25/28) |
| Fisher's exact test for biased strand distribution p-value = 4.92e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
ACCGAGATGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTG > REL606/3928865‑3929005
|
aCCGAGATGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTgg < 1:1172626/76‑1 (MQ=255)
aCCGAGATGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTgg > 1:904905/1‑76 (MQ=255)
cGAGATGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGtt > 2:995895/1‑76 (MQ=255)
cGAGATGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGtt < 1:785845/76‑1 (MQ=255)
gagaTGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTg < 2:772980/76‑1 (MQ=255)
gCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATg < 1:1046498/76‑1 (MQ=255)
ggTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATc > 1:845916/1‑76 (MQ=255)
tAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCga > 1:1021684/1‑76 (MQ=255)
aaaaGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCgag < 1:733845/76‑1 (MQ=255)
aaaaGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCgag < 1:138421/76‑1 (MQ=255)
aaaaGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCgag > 2:609259/1‑76 (MQ=255)
aaaGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCgaga > 1:12550/1‑76 (MQ=255)
aaaGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCgaga > 1:1233760/1‑76 (MQ=255)
aaaGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCgaga < 2:1259812/76‑1 (MQ=255)
aaaGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCgaga > 1:568286/1‑76 (MQ=255)
aGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAg < 2:988568/76‑1 (MQ=255)
aGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAg < 1:67151/76‑1 (MQ=255)
tGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGcc > 2:840179/1‑76 (MQ=255)
tGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGcc < 1:769626/76‑1 (MQ=255)
tGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGcc > 1:749660/1‑76 (MQ=255)
aaGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCaa > 2:438312/1‑76 (MQ=255)
tgttgCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGc > 1:762903/1‑76 (MQ=255)
tttgCTTCTCCCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGcc < 2:384986/75‑1 (MQ=255)
gttgCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGcc > 1:1482122/1‑76 (MQ=255)
ttgCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCt > 1:883393/1‑76 (MQ=255)
tgCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTg < 2:1188103/76‑1 (MQ=255)
tCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTg < 1:732608/76‑1 (MQ=255)
tCTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTg < 1:413006/76‑1 (MQ=255)
cTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGa < 2:873557/76‑1 (MQ=255)
cTACCTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGa > 1:280386/1‑76 (MQ=255)
tACCTTTGACGAACCCGCATCTCGCCCCGTTCTGGTTGCGGAAATGGCGATCGAGAAGGCCAAACGCCTGGGTGAg > 1:1342377/1‑76 (MQ=255)
ccTTTGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGca > 1:193306/1‑76 (MQ=255)
tttGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGcaca > 1:934611/1‑76 (MQ=255)
tGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaag < 1:1317240/76‑1 (MQ=255)
tGACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaag < 1:1317247/76‑1 (MQ=255)
ngACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaag > 1:134292/2‑76 (MQ=255)
gACGAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaaga < 1:1120070/76‑1 (MQ=255)
gACGAACCCGCAGCTCGCCGCGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaaga < 1:585704/76‑1 (MQ=255)
gAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaagaaag < 1:204503/76‑1 (MQ=255)
gAACCCGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaagaaag < 2:810908/76‑1 (MQ=255)
ccGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGt > 2:687138/1‑76 (MQ=255)
ccGCATCTCGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGt < 1:412176/76‑1 (MQ=255)
cGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGtt < 2:495474/76‑1 (MQ=255)
cGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGtt > 2:1502409/1‑76 (MQ=255)
cGCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGtt < 1:65394/76‑1 (MQ=255)
cGCATCTCGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGtt < 2:111609/76‑1 (MQ=255)
gCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTa < 2:762902/76‑1 (MQ=255)
gCATCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTa < 1:1236839/76‑1 (MQ=255)
cATCTCGCCACGTTCTGGTTGCGGAAATGGAGATCGAGAAGGCCAAACGCCCGGTTGAGCACAAGAAAGACGTTAt > 1:1343547/1‑76 (MQ=255)
aTCTCGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATc > 2:1071938/1‑76 (MQ=255)
cGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTc > 2:454388/1‑76 (MQ=255)
cGCCACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTc > 1:1332144/1‑76 (MQ=255)
ccACGTTCTGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTg < 2:710108/76‑1 (MQ=255)
|
ACCGAGATGCAGCGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTG > REL606/3928865‑3929005
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
