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 |
|
A71 F1 I1 R1
|
18 |
59.4 |
3821164 |
95.9% |
3664496 |
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 | 97.9%
| 179.2
/ ‑3.7
| 47 | 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 (28/18); total (29/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACA‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875552‑3875695
|
aGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACA‑tt > 1:1717458/1‑76 (MQ=255)
ttattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACA‑tttttt > 2:1290174/1‑76 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACA‑ttttttttca < 2:1689654/76‑4 (MQ=255)
aCATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCg > 1:739124/1‑76 (MQ=255)
aCATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCg > 1:739133/1‑76 (MQ=255)
cATACGCGTCCTGCCTGTAATTTGCGAACGACTTTAAACCGCTTCACCTTGAACACCCTCCCT‑TTTTTTTCATCGt > 1:1212569/1‑76 (MQ=255)
cATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGt > 1:308505/1‑76 (MQ=255)
cATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGt > 1:1212566/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTg < 2:1262437/76‑1 (MQ=255)
cgcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGaaa > 2:1101525/1‑76 (MQ=255)
cgcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGaaa < 1:182417/76‑1 (MQ=255)
gcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAAt < 2:1327625/76‑1 (MQ=255)
tCCTGATTGTAATTTGAGACCAAATTTAAACCGCTTCACCTTGAAAAACCT‑ACATTTTTTTTCATCGTGAAATGGa < 1:1142803/76‑1 (MQ=255)
cTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACa < 2:214390/76‑1 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACag > 2:1262877/1‑76 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACag > 2:108404/1‑76 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACaga > 2:512582/1‑76 (MQ=255)
aCTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACagag < 2:932841/76‑1 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGa < 2:17189/76‑1 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATaaa < 2:10561/76‑1 (MQ=255)
tGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTg < 2:1335799/76‑1 (MQ=255)
agaACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGtt > 1:482595/1‑76 (MQ=255)
aCGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCaa < 1:1383000/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATa < 1:191047/76‑1 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATaa > 2:857801/1‑76 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATaa < 2:1050303/76‑1 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg < 1:395512/76‑1 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg < 1:1282999/76‑1 (MQ=255)
ttAAACCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCACCGTGAAATGGACAGAGGATAAATTGTTCAATAACgg < 2:533139/76‑1 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 1:907133/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 1:907157/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 1:907144/1‑76 (MQ=255)
aaCCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 2:1583967/76‑1 (MQ=255)
aaCCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt > 2:1753954/1‑76 (MQ=255)
aCCGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTa < 1:880011/76‑1 (MQ=255)
ccGCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt > 1:1197127/1‑76 (MQ=255)
gCTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcc > 1:1900004/1‑76 (MQ=255)
cTTCACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCATTAACGGATTATccc > 1:25445/1‑76 (MQ=255)
cACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGc > 2:1019032/1‑76 (MQ=255)
cACCTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGc > 2:633646/1‑76 (MQ=255)
ccTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAACGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTg < 1:1019842/76‑1 (MQ=255)
cTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa > 1:422442/1‑76 (MQ=255)
cTTGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa > 1:1899037/1‑76 (MQ=255)
ttGAATAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc > 1:1067106/1‑76 (MQ=255)
tGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg > 1:1560873/1‑76 (MQ=255)
tGAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg > 1:847480/1‑76 (MQ=255)
gAAAAAACT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGa > 1:463634/1‑76 (MQ=255)
aaaaaCT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaaa > 2:191803/1‑76 (MQ=255)
aaaaCT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAg > 2:155406/1‑76 (MQ=255)
aaaCT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc > 2:930733/1‑76 (MQ=255)
cT‑ACATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGcc > 1:259976/1‑76 (MQ=255)
|
AGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACT‑ACA‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875552‑3875695
|
| 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
