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 |
|
A18 F1 I1 R1
|
18 |
50.6 |
3235256 |
96.4% |
3118786 |
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 | 92.9%
| 150.9
/ 3.7
| 42 | 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 . (2/1); new base T (22/17); total (24/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
ATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875555‑3875695
|
attattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑ttt‑t > 2:695731/1‑76 (MQ=255)
tattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑ttt‑tt‑t > 1:665300/1‑76 (MQ=255)
tattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAAATACA‑t‑ttt‑tt‑t > 1:665316/1‑76 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑ttt‑tt‑tt > 2:1066384/1‑75 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑ttt‑tt‑tt < 2:1140513/76‑2 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑ttt‑tt‑tt < 2:1304928/76‑2 (MQ=255)
ttCAACATACGCGTCCTGACTGTAAGTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑ttt‑tt‑ttc < 1:596233/76‑3 (MQ=255)
aCATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCg < 1:1499835/76‑1 (MQ=255)
cATACGCGTCCTGCCTGTAATTTGAGAACGAATNTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGt > 2:1373734/1‑76 (MQ=255)
gTCCTGACTGTAATTTGAGNACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATgg > 1:1513293/1‑76 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATgg < 1:1212249/76‑1 (MQ=255)
cTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCTTGAAATGGACa < 2:321300/76‑1 (MQ=255)
cTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAgg > 2:1431606/1‑76 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGa < 2:1090871/76‑1 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCNTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGa > 1:1613193/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAANTGGACAGAGGAt < 1:13958/76‑1 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGATATAACTACA‑T‑TTN‑TTCTCATCGTGAAATGGACAGAGGATaa > 1:133617/1‑76 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATaaa > 2:1037550/1‑76 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATaaa > 2:1037559/1‑76 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAAtt > 2:38740/1‑76 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAAtt < 2:735432/76‑1 (MQ=255)
agaACGAATTTAAACCGATTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGACGATACATTNtt > 2:1526374/1‑76 (MQ=255)
gaACGAATTTAAACCGCGTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATNGACAGAGGATAAATTGTTc < 1:1512494/76‑1 (MQ=255)
aaCGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCa < 2:1411575/76‑1 (MQ=255)
aaCGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCa > 2:402945/1‑76 (MQ=255)
aCGAATTTAAACCGCTTCACCTTGAAAAATCTACA‑TCTTT‑TT‑TCATCGTGAAATGGANAGAGGATAAATTGTTCaa < 1:1541487/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATa < 1:864369/76‑1 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATaa < 1:1084663/76‑1 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTATA‑T‑TTTCTA‑CCATCGTGAANTGCACAGAGGATAAATTGTTCAATAACg > 1:138429/1‑76 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg < 1:964918/76‑1 (MQ=255)
ttAAACCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGAGAGAGGATAAANTGTTCAATAACgc > 1:207181/1‑75 (MQ=255)
tAAACCGCGTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTAAATAACGGa > 1:54665/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAACTGGACAGAGGATAAATTGTTCAATAACGGAt > 2:263263/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 2:263291/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt < 1:628275/76‑1 (MQ=255)
ccGCTTCACCTTGANAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTan < 2:217421/76‑2 (MQ=255)
gCTTCACCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcc < 1:923074/76‑1 (MQ=255)
tCACATTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 1:97109/1‑76 (MQ=255)
aCCTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGNGGATAAATTGTTCAATAACGGATTATCCCCGCt < 2:1365268/76‑1 (MQ=255)
cTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa > 1:435408/1‑76 (MQ=255)
cTTGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa < 2:936681/76‑1 (MQ=255)
ttGAAAAAACTACATT‑TTT‑TT‑TCATGGTGAAATGGACAGANNATAAATTGTTNNACAACGGATTATCCCCGCTGAc > 1:1449999/1‑76 (MQ=255)
ttGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc < 1:503811/76‑1 (MQ=255)
ttGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc > 1:1496761/1‑76 (MQ=255)
tGAAAAAACTACATT‑TTT‑TT‑TCATCGTGAAATNGATAGAGGNTAAATAGTTCAATAACGGANTATCCCCGCTGACg > 2:1334088/1‑76 (MQ=255)
aaaaaaCTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa > 2:91587/1‑76 (MQ=255)
aaaaaCTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaaa > 1:122871/1‑76 (MQ=255)
aaaCTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAGGAAAgc > 1:1470669/1‑76 (MQ=255)
cTACATT‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGcc > 2:1444877/1‑76 (MQ=255)
|
ATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TTT‑TT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875555‑3875695
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
