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 |
|
A77 F1 I1 R1
|
21 |
53.0 |
3608474 |
95.6% |
3449701 |
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 | 98.4%
| 236.5
/ ‑3.3
| 62 | 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 . (0/1); major base T (39/21); minor base A (1/0); total (40/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01 |
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGC > REL606/3875550‑3875692
|
aTAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACa > 1:934983/1‑76 (MQ=255)
aTAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACa < 1:696086/76‑1 (MQ=255)
cATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑tttt > 1:160915/1‑76 (MQ=255)
ttattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑tttttt > 2:833431/1‑76 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑tttttttt > 2:139017/1‑75 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑tttttttt > 1:1517319/1‑75 (MQ=255)
ttCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑ttttttttc < 1:1626199/76‑3 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑ttttttttca < 2:1623123/76‑4 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTg > 1:1140067/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTg < 2:123234/76‑1 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTg > 2:1020042/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTg > 1:706018/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTg > 1:671214/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTg > 1:293555/1‑76 (MQ=255)
cgcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGaaa < 2:509546/76‑1 (MQ=255)
cgTCCTGACTGTTATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATg > 2:254499/1‑76 (MQ=255)
cgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATg > 1:831566/1‑76 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGAc < 2:1707238/76‑1 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACag > 1:156218/1‑76 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACag > 2:1142194/1‑76 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACag < 2:777494/76‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACaga > 1:1674722/1‑76 (MQ=255)
cTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAgg < 1:635671/76‑1 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGAt > 2:874550/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGAt < 1:706383/76‑1 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGAt > 1:430141/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGAt > 1:31193/1‑76 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTTTTCATCGTGAAATGAACAGAGGATa > 1:606592/1‑76 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATaa < 1:92010/76‑1 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATaaa > 1:1187170/1‑76 (MQ=255)
tGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTg > 1:125127/1‑76 (MQ=255)
tGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTg > 1:1438053/1‑76 (MQ=255)
gagaACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGtt < 1:1073295/76‑1 (MQ=255)
agaACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGtt > 2:508746/1‑76 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATa > 1:1126000/1‑76 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAAc > 1:1243228/1‑76 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATaaag < 2:1795921/76‑3 (MQ=255)
ttAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACgg < 1:1202039/76‑1 (MQ=255)
ttAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACgg > 1:327317/1‑76 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa < 2:194826/76‑1 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa > 2:719683/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 2:694999/1‑76 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 1:757291/76‑1 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt > 1:1335533/1‑76 (MQ=255)
aCCGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTa > 2:1120956/1‑76 (MQ=255)
ccGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt < 1:1163047/76‑1 (MQ=255)
ccGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt < 2:134069/76‑1 (MQ=255)
ccGCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt < 1:287952/76‑1 (MQ=255)
gCTTCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcc < 2:1714644/76‑1 (MQ=255)
ttCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc > 1:1694342/1‑76 (MQ=255)
tCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg < 2:126133/76‑1 (MQ=255)
tCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 1:114175/1‑76 (MQ=255)
tCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg < 2:1459844/76‑1 (MQ=255)
tCACCTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 2:960781/1‑76 (MQ=255)
cACCTTGAAAAAACTACAATTTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 1:915914/1‑76 (MQ=255)
ccTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTg > 1:1225942/1‑76 (MQ=255)
ccTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTg < 1:821836/76‑1 (MQ=255)
ccTTGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTg > 1:727010/1‑76 (MQ=255)
tGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg > 2:994065/1‑76 (MQ=255)
tGAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg > 1:856847/1‑76 (MQ=255)
gAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGa > 2:1749934/1‑76 (MQ=255)
gAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGa > 2:1333590/1‑76 (MQ=255)
gAAAAAACTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGa > 1:123152/1‑76 (MQ=255)
aaaaaaCTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa < 2:557394/76‑1 (MQ=255)
aaaaaaCTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa > 1:1127850/1‑76 (MQ=255)
aaaaaCTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaaa > 2:1184649/1‑76 (MQ=255)
aaaaaCTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaaa < 1:771785/76‑1 (MQ=255)
aaaaaCTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaaa < 1:226620/76‑1 (MQ=255)
aaaaCTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAg > 2:285230/1‑76 (MQ=255)
aaaCTACAT‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc > 1:1523668/1‑76 (MQ=255)
|
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑TTTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGC > REL606/3875550‑3875692
|
| 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
