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 |
|
A55 F1 I1 R1
|
18 |
62.6 |
3986840 |
96.5% |
3847300 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,875,632 |
(T)7→8 |
intergenic (‑66/+287) |
glmU ← / ← atpC |
bifunctional N‑acetylglucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyltransferase/F0F1 ATP synthase subunit epsilon |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,875,625 | 1 | . | T | 96.2%
| 192.6
/ 1.1
| 52 | intergenic (‑59/+294) | glmU/atpC | bifunctional N‑acetylglucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyltransferase/F0F1 ATP synthase subunit epsilon |
| Reads supporting (aligned to +/- strand): ref base . (2/0); new base T (23/27); total (25/27) |
| Fisher's exact test for biased strand distribution p-value = 2.26e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.30e-01 |
TAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875551‑3875695
|
tAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑t > 1:313997/1‑76 (MQ=255)
gCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑ttt > 1:1082904/1‑76 (MQ=255)
attattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑ttttt > 1:294946/1‑76 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑ttttttttca > 1:1694670/1‑73 (MQ=255)
cATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGt > 1:53799/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTg < 1:1344368/76‑1 (MQ=255)
tACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGa < 2:958277/76‑1 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGaa < 1:1840672/76‑1 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGaa > 1:1962511/1‑76 (MQ=255)
cgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATg < 2:747977/76‑1 (MQ=255)
cgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATg < 1:806722/76‑1 (MQ=255)
cgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCAGCGTGAAATg < 2:1608607/76‑1 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATgg < 2:425536/76‑1 (MQ=255)
tCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGa > 1:755491/1‑76 (MQ=255)
cTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACa < 2:1933988/76‑1 (MQ=255)
aCTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACagag > 1:1162596/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGAt < 1:1442374/76‑1 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATaa > 2:73023/1‑76 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATaaa < 2:116731/76‑1 (MQ=255)
tttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAAt < 1:740329/76‑1 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAAtt < 2:278812/76‑1 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAAtt < 2:987316/76‑1 (MQ=255)
tGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTg < 2:430579/76‑1 (MQ=255)
tGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTg < 2:1912940/76‑1 (MQ=255)
gaACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTc < 1:1110324/76‑1 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATaa < 2:827329/76‑1 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATaa < 2:616894/76‑1 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAAc > 1:1314597/1‑76 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg < 1:1539523/76‑1 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg > 1:1899080/1‑76 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa < 2:438674/76‑1 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa > 2:227717/1‑76 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa > 1:243434/1‑76 (MQ=255)
tAAACCGCTTCACCTCGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa > 2:701153/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAACACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 1:1898190/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 1:697548/1‑76 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 1:645445/76‑1 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt > 2:42854/1‑76 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 1:921963/76‑1 (MQ=255)
aCCGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTa < 1:1680294/76‑1 (MQ=255)
ccGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt > 1:1492940/1‑76 (MQ=255)
ccGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt < 1:1589801/76‑1 (MQ=255)
cTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATccc < 2:1855510/76‑1 (MQ=255)
cTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATccc > 1:873539/1‑76 (MQ=255)
ttCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc < 2:1195474/76‑1 (MQ=255)
cACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGc > 1:447695/1‑76 (MQ=255)
aaaaaaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa > 1:1672696/1‑76 (MQ=255)
aaaaaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaaa > 2:1644609/1‑76 (MQ=255)
aaaaaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaaa > 2:1127040/1‑76 (MQ=255)
aaaaaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCAGCTGACGaaa > 2:1688107/1‑76 (MQ=255)
aaaaaCTAC‑A‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAg > 2:1368165/1‑76 (MQ=255)
aaaaCTACAA‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAg > 1:330301/1‑76 (MQ=255)
aaaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc > 1:1842572/1‑76 (MQ=255)
aaaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc < 2:1345947/76‑1 (MQ=255)
cTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGcc > 2:1062487/1‑76 (MQ=255)
cTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGcc > 1:963001/1‑76 (MQ=255)
|
TAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875551‑3875695
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
