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 |
|
A73 F1 I1 R1
|
21 |
62.0 |
3993596 |
96.1% |
3837845 |
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 | 97.8%
| 174.0
/ ‑2.5
| 45 | 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 (24/20); total (25/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.21e-01 |
ATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGC > REL606/3875555‑3875692
|
attattCAATATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttttt > 2:261943/1‑76 (MQ=255)
attattCAACATACGCGTCCTGACTGTAATTTGAGAACGGATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttttt < 1:1744868/76‑1 (MQ=255)
tattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttttt‑tt < 2:767504/76‑1 (MQ=255)
tattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttttt‑tt > 1:47089/1‑76 (MQ=255)
tattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttttt‑tt > 1:941239/1‑76 (MQ=255)
ttCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttttt‑tttc < 1:1172043/76‑3 (MQ=255)
ttCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttttt‑tttc > 2:1773567/1‑74 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttttt‑tttca < 1:1426359/76‑4 (MQ=255)
aCATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCg < 1:250079/76‑1 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTg > 1:481279/1‑76 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGaa < 2:1755749/76‑1 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATgg < 2:1863740/76‑1 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGAc > 1:1739482/1‑76 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAACAACTACATTTTTT‑TTCATCGTGAAATGTACagg > 1:1225218/1‑75 (MQ=255)
aCTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACagag > 2:182820/1‑76 (MQ=255)
cTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAgg > 1:320813/1‑76 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGa > 1:1705612/1‑76 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGa > 2:826213/1‑76 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATaa < 1:458654/76‑1 (MQ=255)
tttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAAt > 1:945812/1‑76 (MQ=255)
tttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAAt > 1:1615555/1‑76 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAAtt > 1:1110595/1‑76 (MQ=255)
agaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGtt > 2:523604/1‑76 (MQ=255)
aaCGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCa < 1:1174408/76‑1 (MQ=255)
aaCGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCa < 1:1424146/76‑1 (MQ=255)
aCGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCaa < 2:1987842/76‑1 (MQ=255)
aCGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCaa < 1:519519/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATa < 2:1755951/76‑1 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGCAATGGACAGAGGATAAATTGTTCAATAACg > 1:268569/1‑76 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg > 2:1331706/1‑76 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg > 1:268580/1‑76 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg < 2:418893/76‑1 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa < 2:1533050/76‑1 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 1:440554/76‑1 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 2:1705612/76‑1 (MQ=255)
cGCTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATc < 1:114720/76‑1 (MQ=255)
cTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATccc > 1:830314/1‑76 (MQ=255)
cTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATccc > 1:660318/1‑76 (MQ=255)
cTTCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATccc > 1:1551073/1‑76 (MQ=255)
ttCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc < 2:114848/76‑1 (MQ=255)
tCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 1:1514183/1‑76 (MQ=255)
tCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 2:1490001/1‑76 (MQ=255)
tCACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg < 1:14787/76‑1 (MQ=255)
cACCTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAGTTGTTCAATAACGGATTATCCCCGc > 2:395971/1‑76 (MQ=255)
cTTGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa < 1:436459/76‑1 (MQ=255)
cTTGAAAAAACTACA‑TTTTTCTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa > 1:530245/1‑76 (MQ=255)
ttGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc > 1:41934/1‑76 (MQ=255)
tGAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg > 2:1340643/1‑76 (MQ=255)
gAAAAAACTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGa > 2:985857/1‑76 (MQ=255)
aaaaaaCTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa < 2:1991355/76‑1 (MQ=255)
aaaaaaCTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa < 1:1060548/76‑1 (MQ=255)
aaaaCTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAg > 2:1994499/1‑76 (MQ=255)
aaaCTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc < 1:603640/76‑1 (MQ=255)
aaaCTACATTTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc > 1:1223944/1‑76 (MQ=255)
|
ATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTTTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGC > REL606/3875555‑3875692
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ 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
