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 |
|
A24 F1 I1 R1
|
18 |
37.8 |
2419812 |
96.5% |
2335118 |
76.0 |
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%
| 95.1
/ ‑3.0
| 26 | 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 . (0/1); new base T (17/8); total (17/9) |
| Fisher's exact test for biased strand distribution p-value = 3.46e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCCA > REL606/3875551‑3875696
|
tAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t > 2:288384/1‑76 (MQ=255)
cATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttt‑t > 2:356849/1‑76 (MQ=255)
cATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttt‑t < 2:832161/76‑1 (MQ=255)
cATTATTCAACATACGCGTCCTGACCGTAATGTGAGAACANNTTTAAACCGCNNCGCCTTGAAAAAACTACA‑ttt‑t > 1:1088671/1‑76 (MQ=255)
tattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACGGCTTCACCTTGAAAAAACTACA‑ttt‑tttt < 2:197174/76‑1 (MQ=255)
tattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttt‑tttt > 1:195386/1‑76 (MQ=255)
tattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTGAAACCGCTTCACCTTGAAAAAACTACA‑ttt‑tttt < 1:582884/76‑1 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttt‑tttttca < 1:1171382/76‑4 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTg > 1:1016464/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTg > 1:1016450/1‑76 (MQ=255)
tACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGa > 1:200004/1‑76 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGaa > 2:628511/1‑76 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATgg < 1:573429/76‑1 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACag > 1:894193/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGAt < 1:481512/76‑1 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATaa > 1:1110578/1‑76 (MQ=255)
gagaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGt > 2:982031/1‑76 (MQ=255)
agaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGtt > 2:543936/1‑76 (MQ=255)
aCGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCaa > 2:136236/1‑76 (MQ=255)
ttAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACgg < 2:405011/76‑1 (MQ=255)
ttAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTAAATAACgg < 1:467069/76‑1 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa > 1:954342/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 2:392965/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 2:392977/1‑76 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 2:490559/76‑1 (MQ=255)
cGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATc > 1:353548/1‑76 (MQ=255)
cTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATccc > 2:54084/1‑76 (MQ=255)
ttGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc > 2:361274/1‑76 (MQ=255)
tGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg < 2:693069/76‑1 (MQ=255)
tGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg < 1:262949/76‑1 (MQ=255)
gAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGa > 1:452316/1‑76 (MQ=255)
aaCTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcg < 1:263920/76‑1 (MQ=255)
cTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGcc > 2:786530/1‑76 (MQ=255)
tACA‑TTTGTGTTCATCGTGAAATGGACAGAGGATAAATTGTTCAGTAACGGATTATCCCCGCTGACGAAAGCGCCa < 1:864622/76‑1 (MQ=255)
|
TAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCCA > REL606/3875551‑3875696
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
