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 |
|
A43 F1 I1 R1
|
17 |
61.8 |
3886062 |
97.4% |
3785024 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,929,372 |
A→G |
I386V (ATC→GTC) |
rho → |
transcription termination factor Rho |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,929,372 | 0 | A | G | 98.5%
| 285.2
/ ‑3.9
| 68 | I386V (ATC→GTC) | rho | transcription termination factor Rho |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (38/29); total (38/30) |
| Fisher's exact test for biased strand distribution p-value = 4.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.06e-01 |
CGTTCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAATCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATGACCAAGACCAATG > REL606/3929300‑3929444
|
cGTTCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCa > 1:1450244/1‑76 (MQ=255)
gTTCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCAt < 2:544166/76‑1 (MQ=255)
ttCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCAtt < 1:228579/76‑1 (MQ=255)
ttCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCAtt < 1:346746/76‑1 (MQ=255)
tACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCg > 1:1297766/1‑76 (MQ=255)
tACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACCGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCg > 2:1078537/1‑76 (MQ=255)
cccGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGAt > 1:912978/1‑76 (MQ=255)
cccGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGAt < 1:1430446/76‑1 (MQ=255)
cccGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGAt < 2:1809194/76‑1 (MQ=255)
cGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATgg < 2:1541856/76‑1 (MQ=255)
tAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGc > 2:1347444/1‑76 (MQ=255)
tAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGc < 1:380419/76‑1 (MQ=255)
tAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGc > 2:1508867/1‑76 (MQ=255)
aaaGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCg < 1:581632/76‑1 (MQ=255)
aagaagAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGa > 2:203785/1‑76 (MQ=255)
aagaagAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGa > 2:1068274/1‑76 (MQ=255)
aagaagAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGa > 2:459875/1‑76 (MQ=255)
aagaagAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGa < 1:567056/76‑1 (MQ=255)
agaagaGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGGTCCTGCGCAAAGTCATTCACCCGATGGGCGaa < 1:1182067/76‑1 (MQ=255)
gaagaGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGaaa > 1:1037424/1‑76 (MQ=255)
gaagaGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGaaa > 1:1037448/1‑76 (MQ=255)
gaagaGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGaaa > 1:1037450/1‑76 (MQ=255)
aagaGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAAt > 2:1485120/1‑76 (MQ=255)
agagCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATc < 2:860943/76‑1 (MQ=255)
agCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGa > 1:1648196/1‑76 (MQ=255)
ctgctCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATg > 2:1627095/1‑76 (MQ=255)
cACGTCTCAGGAAGAACTGCAGAAAATGTTGATCCTGCGCCAAGTCATTCCCCCGATGGGCGAAATCGATGCAATg < 1:516504/76‑1 (MQ=255)
cACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATg < 2:17530/76‑1 (MQ=255)
cACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATg > 1:379062/1‑76 (MQ=255)
cACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATg < 2:1848731/76‑1 (MQ=255)
cGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGa > 2:1278517/1‑76 (MQ=255)
tCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTc > 1:959743/1‑76 (MQ=255)
tCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTc > 1:1066786/1‑76 (MQ=255)
cAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTcc < 1:64734/76‑1 (MQ=255)
aGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCt > 2:229751/1‑76 (MQ=255)
ggAAGAACTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTc < 2:1438807/76‑1 (MQ=255)
aagaaCTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCAt > 1:124009/1‑76 (MQ=255)
aagaaCTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCAt > 1:98784/1‑76 (MQ=255)
agaaCTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCAtt > 1:1319059/1‑76 (MQ=255)
agaaCTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGACGGGCGAAATCGATGCAATGGAATTCCTCAtt > 2:1143832/1‑76 (MQ=255)
aaCTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATtaa > 1:1430483/1‑76 (MQ=255)
aaCTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATtaa > 1:1700791/1‑76 (MQ=255)
aaCTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATtaa > 1:825515/1‑76 (MQ=255)
cTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATtaata < 1:985849/76‑1 (MQ=255)
cTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATtaata < 1:1035192/76‑1 (MQ=255)
cTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATtaata < 1:944719/76‑1 (MQ=255)
cTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATtaata < 1:754033/76‑1 (MQ=255)
cTGCAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATtaata < 1:391158/76‑1 (MQ=255)
cAGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAAc > 2:571534/1‑76 (MQ=255)
aGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACt < 1:895664/76‑1 (MQ=255)
aGAAAATGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACt > 2:853414/1‑76 (MQ=255)
aaaaTGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTgg < 1:1916228/76‑1 (MQ=255)
aaaaTGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTgg > 2:1358162/1‑76 (MQ=255)
aaaaTGTGGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTgg < 1:1935388/76‑1 (MQ=255)
tgtgGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAAt < 2:1426243/76‑1 (MQ=255)
tgtgGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAAt < 1:515165/76‑1 (MQ=255)
tgtgGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAAt > 1:1910166/1‑76 (MQ=255)
tgtgGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAAt > 1:1292453/1‑76 (MQ=255)
tgGATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATga < 2:1197738/76‑1 (MQ=255)
tgGATCCTGCGCAAAATCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATga < 2:91966/76‑1 (MQ=255)
ggATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATgac < 2:1346494/76‑1 (MQ=255)
gATCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATgacc < 2:1173339/76‑1 (MQ=255)
aTCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATgacca > 1:982192/1‑76 (MQ=255)
tCCTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATgaccaa > 1:648019/1‑76 (MQ=255)
cTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATgaccaaga > 1:272352/1‑76 (MQ=255)
cTGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATgaccaaga < 1:1720287/76‑1 (MQ=255)
tGCGCAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATgaccaagac > 1:1834015/1‑76 (MQ=255)
cAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATGACCAAGACCAAt > 1:785214/1‑76 (MQ=255)
cAAAGTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATGACCAAGACCAAt > 1:765739/1‑76 (MQ=255)
aaagTCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATGACCAAGACCAATg < 1:1134375/76‑1 (MQ=255)
|
CGTTCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCAAAATCATTCACCCGATGGGCGAAATCGATGCAATGGAATTCCTCATTAATAAACTGGCAATGACCAAGACCAATG > REL606/3929300‑3929444
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
