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 |
|
A13 F1 I1 R1
|
17 |
44.3 |
2973330 |
95.1% |
2827636 |
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 | 90.9%
| 111.9
/ 5.5
| 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 . (2/1); new base T (13/17); total (15/18) |
| Fisher's exact test for biased strand distribution p-value = 5.79e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.08e-01 |
TAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875551‑3875695
|
tAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCATCTTGAAAAAACTACA‑t > 2:1241035/1‑76 (MQ=255)
aGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t > 2:1290029/1‑76 (MQ=255)
ttattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑tt‑ttt > 1:323279/1‑76 (MQ=255)
ttattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑tt‑ttt < 1:846543/76‑1 (MQ=255)
ttattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑tt‑ttt > 1:774030/1‑76 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑tt‑tttttca < 1:538983/76‑4 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTg > 2:173655/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTg > 2:173644/1‑76 (MQ=255)
tACGCGTCCTGACTGTANTTTGAGAACGAATTTAAACCGCTTCACCTTGAAACAACTACA‑T‑TTCTTATCATCGTGa > 1:187940/1‑76 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGaa > 1:926219/1‑76 (MQ=255)
cgcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGaaa < 1:868791/76‑1 (MQ=255)
tCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGa < 1:1031018/76‑1 (MQ=255)
aCTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACagag > 2:522924/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGAt > 2:189132/1‑76 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATaa > 2:1251956/1‑76 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATaaa < 1:708871/76‑1 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAAtt < 1:1177676/76‑1 (MQ=255)
gagaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGt > 2:1135209/1‑76 (MQ=255)
gagaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGt < 2:541824/76‑1 (MQ=255)
gagaACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGtt > 2:682897/1‑76 (MQ=255)
gaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTc > 2:835637/1‑76 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAAc < 2:774028/76‑1 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg > 1:270385/1‑76 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACCGAGGATAAANTGTTCAATAACGGa < 1:3872/76‑1 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa < 2:637433/76‑1 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 2:380423/1‑76 (MQ=255)
aCCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTa < 1:488394/76‑1 (MQ=255)
aCCGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTa < 1:603638/76‑1 (MQ=255)
ccGCTTCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt < 1:937533/76‑1 (MQ=255)
ttCACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc < 1:1111533/76‑1 (MQ=255)
cACCTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGc > 1:779635/1‑76 (MQ=255)
ccTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTg < 2:926217/76‑1 (MQ=255)
cTTGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa < 1:343058/76‑1 (MQ=255)
ttGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc > 2:142563/1‑76 (MQ=255)
ttGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc > 2:781851/1‑76 (MQ=255)
tGAAAAAACTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg < 2:1394746/76‑1 (MQ=255)
tGAAAAAACTACA‑TGTC‑TTTTCATCGTGAACTGGACAGATGATAAATTGTTCAATAACGGATTATCCCCGCTGACg < 1:25338/76‑1 (MQ=255)
cTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGcc < 2:569487/76‑1 (MQ=255)
cTACATT‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGcc < 2:1367913/76‑1 (MQ=255)
|
TAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875551‑3875695
|
| 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
