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 |
|
A34 F1 I1 R1
|
18 |
56.1 |
3547650 |
96.9% |
3437672 |
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 | 95.8%
| 184.5
/ 0.6
| 48 | 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 (28/18); total (29/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCG > REL606/3875550‑3875693
|
aTAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACa > 1:857707/1‑76 (MQ=255)
tAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t < 1:680762/76‑1 (MQ=255)
aGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t < 1:650347/76‑1 (MQ=255)
aGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t < 1:1275355/76‑1 (MQ=255)
gCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t‑t < 2:749808/76‑1 (MQ=255)
cATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t‑tt > 1:1494914/1‑76 (MQ=255)
attattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t‑ttt < 1:1759145/76‑1 (MQ=255)
attattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t‑ttt < 1:1044226/76‑1 (MQ=255)
cATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGt > 2:1521626/1‑76 (MQ=255)
cATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGt > 1:222149/1‑76 (MQ=255)
atccgcgTCCTGACTGAAATTTGAGAACGAATTTAAGCCGCCTCACCGTGAAATAGCTACA‑T‑TCTGTTTCATCGTg < 2:807129/73‑1 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTg > 2:799430/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTg < 2:807117/76‑1 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGaa > 1:149528/1‑76 (MQ=255)
gcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAAt < 1:538122/76‑1 (MQ=255)
cgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATg > 2:223038/1‑76 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATgg < 1:657163/76‑1 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATgg > 1:1292216/1‑76 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGAc < 1:1154799/76‑1 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGAc < 2:1346378/76‑1 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACag < 1:1085560/76‑1 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACag < 1:1085568/76‑1 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACag < 1:1454788/76‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACaga > 2:1518534/1‑76 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATaaa > 1:239723/1‑76 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAAtt > 1:146212/1‑76 (MQ=255)
tGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTg < 1:717160/76‑1 (MQ=255)
gagaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGt > 2:1516070/1‑76 (MQ=255)
agaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGtt < 2:1096477/76‑1 (MQ=255)
gaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTc < 2:190134/76‑1 (MQ=255)
gaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTc < 1:66089/76‑1 (MQ=255)
aCGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCaa < 1:1096813/76‑1 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAAc > 1:1556444/1‑76 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa > 2:628574/1‑76 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa > 2:1203998/1‑76 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa > 2:675721/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 1:1312288/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 1:146594/1‑76 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 1:1500253/76‑1 (MQ=255)
aCCGCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTa < 2:460716/76‑1 (MQ=255)
gCTTCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcc < 1:22740/76‑1 (MQ=255)
ttCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc > 1:1269421/1‑76 (MQ=255)
tCACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 2:1524656/1‑76 (MQ=255)
cACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGc > 1:1749256/1‑76 (MQ=255)
cACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGc > 2:161661/1‑76 (MQ=255)
cACCTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGc > 1:408238/1‑76 (MQ=255)
ccTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTg < 2:1268995/76‑1 (MQ=255)
ccTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTg > 1:1533439/1‑76 (MQ=255)
cTTGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa < 2:1310449/76‑1 (MQ=255)
ttGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc > 1:197005/1‑76 (MQ=255)
tGAAAAAACTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg > 1:1305621/1‑76 (MQ=255)
aaaaCTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAg > 1:806483/1‑76 (MQ=255)
aaaCTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc > 2:124807/1‑76 (MQ=255)
aaaCTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc > 2:457542/1‑76 (MQ=255)
aaaCTACATT‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc > 2:1581421/1‑76 (MQ=255)
aaCTACA‑TCT‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcg > 1:15739/1‑76 (MQ=255)
|
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑T‑TTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCG > REL606/3875550‑3875693
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
