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 |
|
A26 F1 I1 R1
|
14 |
45.0 |
2861610 |
96.8% |
2770038 |
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 | 97.0%
| 119.9
/ ‑2.4
| 33 | 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 (13/19); total (14/19) |
| Fisher's exact test for biased strand distribution p-value = 4.24e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01 |
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCG > REL606/3875550‑3875693
|
aTAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACa > 1:819159/1‑76 (MQ=255)
tAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t > 2:675337/1‑76 (MQ=255)
aGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tt < 2:836344/76‑1 (MQ=255)
aGCATTATTCAACATACGCGTCCTGACTGGAATTTGGGAACGAATTTAAACCGCTTCNCCTTGAAAAAACTACA‑tt < 1:1361406/76‑1 (MQ=255)
cATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tt‑tt > 1:1137291/1‑76 (MQ=255)
attattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tt‑ttt > 1:304906/1‑76 (MQ=255)
ttattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tt‑tttt < 1:136755/76‑1 (MQ=255)
ttattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tt‑tttt < 1:837567/76‑1 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tt‑ttttttca > 1:1141774/1‑73 (MQ=255)
aTACTCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTg > 2:1408493/1‑76 (MQ=255)
tACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGa > 2:332103/1‑76 (MQ=255)
gcgcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGaa < 1:741363/75‑1 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGaa > 1:868674/1‑76 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACag < 1:223037/76‑1 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACag < 1:1375534/76‑1 (MQ=255)
tGACTGTAATTTGAGAACGAACTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACag < 2:213216/76‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACaga > 1:440062/1‑76 (MQ=255)
aCTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACagag < 1:1053343/76‑1 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGAt < 1:924142/76‑1 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGAt < 1:280049/76‑1 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATa > 1:964585/1‑76 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATaa < 2:881516/76‑1 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATaa < 2:229288/76‑1 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATaaa < 1:293609/76‑1 (MQ=255)
cGAATTTAAACCGCNTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCaan < 2:199397/76‑2 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATan < 1:1394348/76‑2 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATaa > 2:745428/1‑76 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 1:561522/76‑1 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt > 2:319220/1‑76 (MQ=255)
acagCTTCGCCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTa < 2:1055270/73‑1 (MQ=255)
aCCGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTa < 2:1055254/76‑1 (MQ=255)
ccGCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt < 1:530162/76‑1 (MQ=255)
gCTTCACCTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcc < 2:145590/76‑1 (MQ=255)
tCACATTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 2:1409572/1‑76 (MQ=255)
cTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa > 1:358448/1‑76 (MQ=255)
cTTGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa < 1:1029635/76‑1 (MQ=255)
ttGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc > 1:288634/1‑76 (MQ=255)
tGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg > 1:155390/1‑76 (MQ=255)
tGAAAAAACTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg < 1:495206/76‑1 (MQ=255)
aaaaaaCTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa > 2:1141211/1‑76 (MQ=255)
aaCTACATTT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcg > 1:440189/1‑76 (MQ=255)
aaCTACA‑TTATTTTTCATCGTGANATGGANAGAGGATAAATTGTNCACTAATGGATTATCCACGCTGACGAAAgcg > 2:189662/1‑76 (MQ=255)
|
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCG > REL606/3875550‑3875693
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
