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 |
|
A21 F1 I1 R1
|
16 |
43.9 |
3070277 |
96.2% |
2953606 |
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 | 94.3%
| 114.9
/ 0.5
| 35 | 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 . (1/1); new base T (17/16); total (18/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.17e-01 |
TAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCG > REL606/3875551‑3875693
|
tAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t < 2:682673/76‑1 (MQ=255)
cATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tt‑tt > 2:1205971/1‑76 (MQ=255)
attattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tt‑ttt > 1:439260/1‑76 (MQ=255)
attattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATGTAAACCGCTTCACCTTGAAAAAACTACA‑tt‑ttt < 2:1320062/76‑1 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tt‑ttt‑tttca < 2:355449/76‑4 (MQ=255)
aaCATACGCGTCCTGACTGTAATTTGAGAACGAATTTACACCGCATCATCTTGAAAATACTACAGTT‑CTT‑TTCATc > 1:1388014/1‑76 (MQ=255)
tACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTCTTT‑TTCATCGTGa > 1:1063050/1‑76 (MQ=255)
cgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATg < 1:106661/76‑1 (MQ=255)
cgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATg > 1:367676/1‑76 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCNTCGTGAAATGCAc > 1:201687/1‑76 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGAc < 1:902467/76‑1 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGAc > 1:1076259/1‑76 (MQ=255)
gACTGTAATTTGAGACCGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACaga < 1:850221/76‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACaga > 1:468080/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGAt < 2:640109/76‑1 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGAt < 1:940219/76‑1 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGAt > 2:1211259/1‑76 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCACGGTGAAATGGACAGAGGATaaa > 2:570841/1‑76 (MQ=255)
tttGAGAACGAATTTAAACCGCTTCACATTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGTATAAAt > 1:1513838/1‑76 (MQ=255)
tGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTg < 1:1239513/76‑1 (MQ=255)
agaACGAATTTAAACCGCTTCACCTTGAAAAGACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGtt < 2:249954/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATa < 1:1091397/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATa > 2:1413551/1‑76 (MQ=255)
ttAAACCGCTTCCNCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGATATGGACAGAGGATAAATTGTTCAATAACgg < 2:1392715/76‑1 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa > 2:950951/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGNCAGAGGATAAATTGTTCAATAACGGAt < 1:1531897/76‑1 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGNCAGAGGATAAATTGTTCAATAACGGAt < 1:1531909/76‑1 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 1:1037861/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt < 1:409014/76‑1 (MQ=255)
ccGCTTCTCCTTGAAAAAACTACA‑TT‑TTTCTTCATCGTGAAATGGACAGAGGATAAATCGTTCAATAACGGATTAt < 1:76801/76‑1 (MQ=255)
ccGCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt < 1:944354/76‑1 (MQ=255)
gCTTCACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcc > 1:211945/1‑76 (MQ=255)
cACCTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGc > 2:75950/1‑76 (MQ=255)
ccTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTg < 2:769677/76‑1 (MQ=255)
cTTGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa > 1:154398/1‑76 (MQ=255)
tGAAAAAACTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg > 1:273696/1‑76 (MQ=255)
aaaaaaCTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa > 1:750061/1‑76 (MQ=255)
aaaaaaCTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa > 1:407856/1‑76 (MQ=255)
aaaaCTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAg < 1:549881/76‑1 (MQ=255)
aaaaCTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAg > 2:956036/1‑76 (MQ=255)
aaCTACATTT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcg < 2:523218/76‑1 (MQ=255)
|
TAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TT‑TTT‑TTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCG > REL606/3875551‑3875693
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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
