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 |
|
A28 F1 I1 R1
|
15 |
45.6 |
2893554 |
96.7% |
2798066 |
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 | 97.3%
| 133.7
/ ‑2.4
| 37 | 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 . (1/0); new base T (17/19); total (18/19) |
| Fisher's exact test for biased strand distribution p-value = 4.86e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.15e-01 |
AGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875552‑3875695
|
aGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGNATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t < 2:1227079/76‑1 (MQ=255)
attattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t‑ttt > 2:261123/1‑76 (MQ=255)
ttattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t‑tttt < 2:1263110/76‑1 (MQ=255)
ttattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t‑tttt > 1:1065110/1‑76 (MQ=255)
tattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t‑ttttt > 1:695903/1‑76 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t‑tttttt < 2:270723/76‑2 (MQ=255)
ttCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t‑ttttttc < 2:157174/76‑3 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t‑ttttttca > 1:556960/1‑73 (MQ=255)
aCATACGGGTCCTGACTGTAATTTGAGCACGAATTTAAACCGCTTCACCTTGTAAAAACTACATT‑T‑TTTTT‑CATCg < 1:72602/76‑1 (MQ=255)
aCATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCg > 2:1152083/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGACCGAATTTAAACCGCTTCACCTTGAAAACACGACATT‑T‑TTTTT‑CATCGTg > 1:1364069/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTg > 2:1383890/1‑76 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGaa < 1:646719/76‑1 (MQ=255)
gcgTCCTGACTGTACTTTGAGAACTAATGTANACCGCTTCTCCTTGNAAAAANTACATT‑T‑TTTTT‑CGTCGTGAAAt < 2:185897/76‑1 (MQ=255)
tCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGa < 2:696644/76‑1 (MQ=255)
ccTGACTGTAATTTGAGAANGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGAc > 1:1339745/1‑76 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGAc < 1:285329/76‑1 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTGAANCCGCTTCACTGTCAAAAAGCTACATT‑T‑TTTTT‑CATCGTGAAATGGAc < 1:133924/76‑1 (MQ=255)
cTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACa > 1:714912/1‑76 (MQ=255)
cTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACa > 1:714937/1‑76 (MQ=255)
aCTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACagag > 2:604627/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTATA‑TGA‑TATTT‑CATCGTGAAATGGACAGAGCAt > 1:1306483/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGAt > 2:749597/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TGTATTT‑CATAGTGCAATGGACAGAGGAt > 1:1306480/1‑76 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATaa < 2:470503/76‑1 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATaaa < 2:330071/76‑1 (MQ=255)
tttGAGAACGAATTTAAAACGATTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAAt < 1:1354195/76‑1 (MQ=255)
cGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAAt < 1:1279058/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATa < 2:176362/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATa < 2:929420/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATa < 1:370198/76‑1 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATaa > 2:556828/1‑76 (MQ=255)
ttAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACgg < 1:763514/76‑1 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa < 1:806866/76‑1 (MQ=255)
aCCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTa < 1:758786/76‑1 (MQ=255)
ccGCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CNTCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt > 2:1216847/1‑76 (MQ=255)
gCTTCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcc < 2:948004/76‑1 (MQ=255)
gCTTCACCATGAAAAAACTACATT‑T‑TTTTT‑CATCGTGATATGGAAATACGCTAAATTATCCCATAACAGATTATcc > 1:1308933/1‑76 (MQ=255)
ttCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc > 2:1038384/1‑76 (MQ=255)
ttCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc > 1:611039/1‑76 (MQ=255)
tCACCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 2:394051/1‑76 (MQ=255)
aCCTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCt > 1:587016/1‑76 (MQ=255)
ccTTGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTg > 2:618506/1‑76 (MQ=255)
ttGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc < 2:18208/76‑1 (MQ=255)
tGAAAAAACTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGGTCAATAACGGATTATCCCCGCTGACg < 1:1360176/76‑1 (MQ=255)
aCTACATT‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcgc > 1:959521/1‑76 (MQ=255)
cTACA‑T‑T‑TTTTTNCATCGTGTAGTGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGcc > 1:20115/1‑76 (MQ=255)
|
AGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑T‑TTTTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875552‑3875695
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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
