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 |
|
A12 F1 I1 R1
|
18 |
38.4 |
2430560 |
95.7% |
2326045 |
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 | 96.4%
| 96.3
/ ‑2.7
| 28 | 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 (13/14); total (13/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGC > REL606/3875550‑3875692
|
aTAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACa > 1:289268/1‑76 (MQ=255)
tAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t > 2:626815/1‑76 (MQ=255)
aGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tt > 2:54557/1‑76 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tttt‑t‑ttt < 2:369494/76‑2 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tttt‑t‑ttt < 1:798245/76‑2 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tttt‑t‑tttca < 2:599586/76‑4 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTg < 1:89836/76‑1 (MQ=255)
cgTCCTGACTGTAATTTGAGAACGAATTTTAACCGCTTCACCTTGAAAAAATTACA‑TTTT‑TNTTCATCGTGAAATg < 1:6842/76‑1 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCCTCGTGAAATgg < 1:30874/76‑1 (MQ=255)
cccgACTGTCATTTGATAACGCCTCGAAACCGCTTCCCCCTGAAAACACTACA‑TTTTCT‑TTCATCGTGAAATGCAc > 2:1076209/4‑76 (MQ=255)
cTGACTGTAATTTGAGAACGCATTTAAACCGCTACACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACa < 1:1199521/76‑1 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAANCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACag > 1:1059328/1‑76 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTNGAGAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACag < 1:1177897/76‑1 (MQ=255)
gTAATTTNCGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGAt > 2:977917/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAANAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGAt < 1:1175287/76‑1 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATaa > 1:499991/1‑76 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATaa > 2:148500/1‑76 (MQ=255)
tttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAAt < 1:125103/76‑1 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAAtt > 2:1140397/1‑76 (MQ=255)
aaCGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCa < 2:123224/76‑1 (MQ=255)
aCGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCaa < 1:582460/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATa > 2:125238/1‑76 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATaa < 1:834511/76‑1 (MQ=255)
aTTTAAACCGCTTCGCCTTCAAAAAACTATATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAAc < 2:24534/76‑1 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa > 2:522340/1‑76 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa > 1:207657/1‑76 (MQ=255)
aagccGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 1:366883/4‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 1:366858/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt < 1:231566/76‑1 (MQ=255)
aCCGCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAGATGGACAGAGGANAAATTGTCGANTAATGGATTa < 2:1194421/76‑1 (MQ=255)
gCTTCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcc > 1:421289/1‑76 (MQ=255)
ttCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc < 2:1078021/76‑1 (MQ=255)
tCACCTTGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 2:868835/1‑76 (MQ=255)
tGAAAAAACTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg < 1:773112/76‑1 (MQ=255)
aaaCTACATTTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc > 1:165009/1‑76 (MQ=255)
|
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTTT‑T‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGC > REL606/3875550‑3875692
|
| 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
