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 |
|
A61 F1 I1 R1
|
19 |
50.7 |
3232285 |
96.8% |
3128851 |
74.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,928,947 |
A→G |
E244G (GAA→GGA) |
rho → |
transcription termination factor Rho |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,928,947 | 0 | A | G | 98.4%
| 254.0
/ ‑4.8
| 61 | E244G (GAA→GGA) | rho | transcription termination factor Rho |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base G (34/26); total (35/26) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
CGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGCTCGACTCCATCACTC > REL606/3928877‑3929021
|
cGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATg < 2:1352176/75‑1 (MQ=255)
gTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATgg < 2:492567/75‑1 (MQ=255)
gTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATgg > 1:1151549/1‑75 (MQ=255)
gTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAAGTTGCGGGAATgg < 1:1186414/75‑1 (MQ=255)
tCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGt < 2:35059/75‑1 (MQ=255)
tGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGa > 1:1076914/1‑75 (MQ=255)
ggTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGAt < 1:1013202/75‑1 (MQ=255)
ggTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGAt > 2:358329/1‑75 (MQ=255)
ggTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGAt < 1:744895/75‑1 (MQ=255)
gTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATc < 2:1322232/75‑1 (MQ=255)
tAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCg > 1:1188062/1‑75 (MQ=255)
aaaaGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCga < 1:785636/75‑1 (MQ=255)
aaaGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCgag > 1:350805/1‑75 (MQ=255)
aGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGaa > 1:1127847/1‑75 (MQ=255)
ggTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAg > 2:1164789/1‑75 (MQ=255)
tGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGc > 1:815750/1‑75 (MQ=255)
gAAGTTGTTGCTTCTACGTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGcc > 2:33478/1‑75 (MQ=255)
gAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGcc > 2:163208/1‑75 (MQ=255)
gttgCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGc > 2:147488/1‑75 (MQ=255)
gttgCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGc > 1:1521254/1‑75 (MQ=255)
tgCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCt > 2:214234/1‑75 (MQ=255)
cTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTgg > 2:656235/1‑75 (MQ=255)
ttCTAGCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGt > 1:1241230/1‑75 (MQ=255)
ttCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGt > 2:22103/1‑75 (MQ=255)
tCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGtt > 2:1239731/1‑75 (MQ=255)
tCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGtt > 1:487406/1‑75 (MQ=255)
tACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGa > 1:514916/1‑75 (MQ=255)
tACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGa > 1:183649/1‑75 (MQ=255)
tttGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGcac < 1:331027/75‑1 (MQ=255)
ttGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGcaca < 1:968923/75‑1 (MQ=255)
ttGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGcaca > 1:698122/1‑75 (MQ=255)
gACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaag > 1:623480/1‑75 (MQ=255)
gACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaag > 2:478937/1‑75 (MQ=255)
gACGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaag > 2:1496011/1‑75 (MQ=255)
aCGAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaaga < 2:336813/75‑1 (MQ=255)
gAACCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaagaaa < 1:1150813/75‑1 (MQ=255)
aaCCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaagaaag < 2:599338/75‑1 (MQ=255)
aaCCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaagaaag < 1:691320/75‑1 (MQ=255)
aCCCGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACaagaaaga > 2:705130/1‑75 (MQ=255)
ccGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACg < 1:1578410/75‑1 (MQ=255)
ccGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACg > 2:1383386/1‑75 (MQ=255)
ccGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACg > 2:1018111/1‑75 (MQ=255)
cGCATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGt > 2:413084/1‑75 (MQ=255)
cATCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTa < 2:1084788/75‑1 (MQ=255)
aTCTCGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTAt < 2:104809/75‑1 (MQ=255)
tctcGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATc < 1:1598392/75‑1 (MQ=255)
tctcGCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATc < 1:793078/75‑1 (MQ=255)
gCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTc > 2:503827/1‑75 (MQ=255)
gCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTc < 2:156699/75‑1 (MQ=255)
gCCACGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTc < 2:381693/75‑1 (MQ=255)
aCGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGc > 1:553068/1‑75 (MQ=255)
aCGTTCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGc > 1:469664/1‑75 (MQ=255)
gtgcAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGCTc < 2:494293/72‑1 (MQ=255)
ttCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGCTCg < 1:147488/75‑1 (MQ=255)
tCAGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGCTCGa > 2:969827/1‑75 (MQ=255)
aGGTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGCTCGACt > 2:537421/1‑75 (MQ=255)
ggTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGCTCGACTc < 2:694748/75‑1 (MQ=255)
gTTGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGCTCGACTcc > 1:161276/1‑75 (MQ=255)
ttGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGCTCGACTCCa < 2:692051/75‑1 (MQ=255)
ttGCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGCTCGACTCCa < 2:904298/75‑1 (MQ=255)
gCGGGAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGCTCGACTCCATc > 1:795292/1‑75 (MQ=255)
aaaTGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGCTCGACTCCATCACTc > 2:502953/1‑75 (MQ=255)
|
CGTCTGGTAAAAGGTGAAGTTGTTGCTTCTACCTTTGACGAACCCGCATCTCGCCACGTTCAGGTTGCGGAAATGGTGATCGAGAAGGCCAAACGCCTGGTTGAGCACAAGAAAGACGTTATCATTCTGCTCGACTCCATCACTC > REL606/3928877‑3929021
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
