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 |
|
A1 F1 I1 R1
|
17 |
37.0 |
2377229 |
96.2% |
2286894 |
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 | 86.7%
| 88.5
/ 9.0
| 30 | 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 . (2/2); new base T (12/14); total (14/16) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.90e-01 |
AGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGC > REL606/3875552‑3875692
|
aGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t > 1:853861/1‑76 (MQ=255)
gCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑tt > 2:155999/1‑76 (MQ=255)
attattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑tt‑tt > 2:888754/1‑76 (MQ=255)
attattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑tt‑tt > 2:456534/1‑76 (MQ=255)
ttattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑tt‑ttt > 1:407774/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTg < 1:279709/76‑1 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTg > 1:616992/1‑76 (MQ=255)
tACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGa > 1:802697/1‑76 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGaa > 2:453668/1‑76 (MQ=255)
aCGCGCCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGaa > 2:412065/1‑76 (MQ=255)
cTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACa < 2:575720/76‑1 (MQ=255)
tGACTGTAGTTTGAGAACGAATTTAAACCGCTTCACCTTGAANAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACag > 1:962340/1‑76 (MQ=255)
tGACTGTAATTTGAGAACGAATTTGAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACag < 1:361257/76‑1 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAggn > 1:1041592/1‑75 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGAt > 1:423804/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGAt > 1:75493/1‑76 (MQ=255)
gTAATTTGAGAACGAATNTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TT‑TTNCT‑CATCTTGAAATGGACAGAGGAt > 2:983239/1‑76 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATa < 1:736839/76‑1 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATa < 2:381599/76‑1 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATaa < 1:974743/76‑1 (MQ=255)
tttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAAt > 1:2912/1‑76 (MQ=255)
tGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTg > 2:971621/1‑76 (MQ=255)
aCGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCaa < 2:532095/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATCAATTGTTCAATa < 2:174466/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATa > 1:669030/1‑76 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACANT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATa < 1:968783/76‑1 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg > 1:27096/1‑76 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg < 2:60511/76‑1 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACA‑T‑TTATTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg < 1:950918/76‑1 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg < 2:1161863/74‑1 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACA‑TCTT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg > 1:1161864/1‑74 (MQ=255)
naaCTGCTTCACCTTGAAAAANCTACA‑T‑NT‑TTT‑TCCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt < 1:994265/75‑1 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 2:236226/76‑1 (MQ=255)
ttGAAAAAACTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc < 1:411811/76‑1 (MQ=255)
aaaaCTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAg < 1:412462/76‑1 (MQ=255)
aaaCTACATT‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc < 1:568972/76‑1 (MQ=255)
|
AGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TT‑TTT‑T‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGC > REL606/3875552‑3875692
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
