Locus 995

Sequence ID X_DroMel_CAF1
Location 2,889,609 – 2,889,704
Length 95
Max. P 0.847466
window1608 window1609

overview

Window 8

Location 2,889,609 – 2,889,704
Length 95
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 89.31
Mean single sequence MFE -22.02
Consensus MFE -18.85
Energy contribution -19.10
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.78
Structure conservation index 0.86
SVM decision value 0.77
SVM RNA-class probability 0.847466
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2889609 95 + 22224390
AAUAAAAGUCCAGAUCUAGAUUCAGAUUCGGU-UCCGGUUACCCGGUUUCCCGGCUUCCCGGAUCUGGUACCC-CCCCCAAAGCCAAACCGCAUUUC
.......((((((((((......)))......-(((((..(.((((....)))).)..)))))))))).))..-........((......))..... ( -23.10)
>DroSec_CAF1 276425 87 + 1
AAUAAAAGUCCAGAUCUAGAUUCAGAUUCGGU-UCCGGC--------UUCCCGGUUUCCCGGAUCUGGUACCC-CCCUCCAAGCCAAACCGCAUUUC
.......((((((((((.((.......))((.-.((((.--------...))))...)).)))))))).))..-........((......))..... ( -21.10)
>DroSim_CAF1 246933 88 + 1
AAUAAAAGUCCAGAUCUAGAUUCAGAUUCGGU-UCCGGU--------UUCCCGGUUUCCCGGAUCUGGUACCCCCCCUCCAAGCCAAACCGCAUUUC
.......((((((((((.((.......))((.-.((((.--------...))))...)).)))))))).))...........((......))..... ( -21.40)
>DroYak_CAF1 284775 86 + 1
AAUAAAAGUCCAGAUCUAGAUUCAGAUUCGGUUUCCGGA--------UUCACGGGUUCCCGGAUCUGGUACC---CUCCCAAGCCAAACCGCAUUUC
.......(((((((((........(((((((...)))))--------))..(((....)))))))))).)).---.......((......))..... ( -22.50)
>consensus
AAUAAAAGUCCAGAUCUAGAUUCAGAUUCGGU_UCCGGU________UUCCCGGUUUCCCGGAUCUGGUACCC_CCCCCCAAGCCAAACCGCAUUUC
.......((((((((((.((.......))((...((((............))))...)).)))))))).))...........((......))..... (-18.85 = -19.10 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 2,889,609 – 2,889,704
Length 95
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 89.31
Mean single sequence MFE -29.70
Consensus MFE -20.55
Energy contribution -20.55
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.69
SVM decision value 0.17
SVM RNA-class probability 0.618815
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2889609 95 - 22224390
GAAAUGCGGUUUGGCUUUGGGGG-GGGUACCAGAUCCGGGAAGCCGGGAAACCGGGUAACCGGA-ACCGAAUCUGAAUCUAGAUCUGGACUUUUAUU
.......((((..(.(((((((.-.....))...(((((..(.((((....)))).)..)))))-.))))).)..)))).................. ( -35.50)
>DroSec_CAF1 276425 87 - 1
GAAAUGCGGUUUGGCUUGGAGGG-GGGUACCAGAUCCGGGAAACCGGGAA--------GCCGGA-ACCGAAUCUGAAUCUAGAUCUGGACUUUUAUU
......(((((((((((...((.-.....))...(((((....)))))))--------))).))-)))).(((((....)))))............. ( -29.20)
>DroSim_CAF1 246933 88 - 1
GAAAUGCGGUUUGGCUUGGAGGGGGGGUACCAGAUCCGGGAAACCGGGAA--------ACCGGA-ACCGAAUCUGAAUCUAGAUCUGGACUUUUAUU
.......(((((((((((((...((....))...))))))...((((...--------.)))).-.)))))))....((((....))))........ ( -30.00)
>DroYak_CAF1 284775 86 - 1
GAAAUGCGGUUUGGCUUGGGAG---GGUACCAGAUCCGGGAACCCGUGAA--------UCCGGAAACCGAAUCUGAAUCUAGAUCUGGACUUUUAUU
.....((......))....(((---(((.((((((((((....))).((.--------((.(....).)).))........)))))))))))))... ( -24.10)
>consensus
GAAAUGCGGUUUGGCUUGGAGGG_GGGUACCAGAUCCGGGAAACCGGGAA________ACCGGA_ACCGAAUCUGAAUCUAGAUCUGGACUUUUAUU
.....((......))..........(((.((((((((((....)))..............((((.......))))......))))))))))...... (-20.55 = -20.55 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:54 2006