Locus 6574

Sequence ID X_DroMel_CAF1
Location 16,421,879 – 16,422,030
Length 151
Max. P 0.927602
window10738 window10739 window10740

overview

Window 8

Location 16,421,879 – 16,421,990
Length 111
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 83.26
Mean single sequence MFE -28.74
Consensus MFE -20.67
Energy contribution -20.68
Covariance contribution 0.00
Combinations/Pair 1.21
Mean z-score -2.21
Structure conservation index 0.72
SVM decision value 1.18
SVM RNA-class probability 0.927602
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16421879 111 + 22224390
GCAACAAAUAUUUAAUAAAGUUUAACUAAAGAUCAUUUAUCCGCCGUUACAUCGGCAACAAACUUGGUCGAGGAAU-CAAGUCGCCCGUCCGCAAACUGGACGGAAGAUUUG
.........................((...(((((.......((((......))))........))))).))....-((((((..(((((((.....)))))))..)))))) ( -28.26)
>DroSec_CAF1 42590 111 + 1
CCAACAAAUAUUUAAUAAAGUUUAACUAAAGAUCAAUUAUCUGCCGUUACAUCGGCAUCAGACUUGGUCGAGGAAC-CAAGUCGCCCGUCCGCAAACUGGACGGAACAUUCG
.........................................(((((......)))))...((((((((......))-))))))..(((((((.....)))))))........ ( -30.40)
>DroSim_CAF1 38866 111 + 1
CCAACAAAUAUUUAAUAAAGUUUAACUAAAAAUCAAUUGUCUGCCGUUACAUCGGCACCAGACUUGGUCGAGGAAC-CAAGUCGCCCGUCCGCAAACUGGACGGAACAUUCG
.........................................(((((......)))))...((((((((......))-))))))..(((((((.....)))))))........ ( -30.30)
>DroYak_CAF1 40020 112 + 1
UCAACAAAUAAUUAAUAGAAUUUGACUAAAGACCCUUUAACUGCCGUUACAUUGGCACUGGACUUGGCAGAGGAUUAGAAGUCGGGUGUCCAGAACGUGGACAAAAGAUUCA
.................((((((........((((.....((((((...((.......))....))))))..(((.....)))))))(((((.....)))))...)))))). ( -26.00)
>consensus
CCAACAAAUAUUUAAUAAAGUUUAACUAAAGAUCAAUUAUCUGCCGUUACAUCGGCACCAGACUUGGUCGAGGAAC_CAAGUCGCCCGUCCGCAAACUGGACGGAACAUUCG
..........................................((((......))))....((((((((......)).))))))..(((((((.....)))))))........ (-20.67 = -20.68 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 16,421,879 – 16,421,990
Length 111
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 83.26
Mean single sequence MFE -30.23
Consensus MFE -21.17
Energy contribution -21.05
Covariance contribution -0.12
Combinations/Pair 1.17
Mean z-score -1.54
Structure conservation index 0.70
SVM decision value 0.04
SVM RNA-class probability 0.556004
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16421879 111 - 22224390
CAAAUCUUCCGUCCAGUUUGCGGACGGGCGACUUG-AUUCCUCGACCAAGUUUGUUGCCGAUGUAACGGCGGAUAAAUGAUCUUUAGUUAAACUUUAUUAAAUAUUUGUUGC
(((.((.(((((((.......))))))).)).)))-......((((...(((((((((((......)))).)))))))(((.((((((........)))))).))).)))). ( -26.60)
>DroSec_CAF1 42590 111 - 1
CGAAUGUUCCGUCCAGUUUGCGGACGGGCGACUUG-GUUCCUCGACCAAGUCUGAUGCCGAUGUAACGGCAGAUAAUUGAUCUUUAGUUAAACUUUAUUAAAUAUUUGUUGG
((((((((((((((.......))))))..((((((-(((....)))))))))...(((((......)))))..(((((((...)))))))..........)))))))).... ( -34.60)
>DroSim_CAF1 38866 111 - 1
CGAAUGUUCCGUCCAGUUUGCGGACGGGCGACUUG-GUUCCUCGACCAAGUCUGGUGCCGAUGUAACGGCAGACAAUUGAUUUUUAGUUAAACUUUAUUAAAUAUUUGUUGG
.....((.((((((.......))))))))((((((-(((....)))))))))...(((((......)))))..((((.(((.((((((........)))))).))).)))). ( -36.70)
>DroYak_CAF1 40020 112 - 1
UGAAUCUUUUGUCCACGUUCUGGACACCCGACUUCUAAUCCUCUGCCAAGUCCAGUGCCAAUGUAACGGCAGUUAAAGGGUCUUUAGUCAAAUUCUAUUAAUUAUUUGUUGA
.((((....((((((.....))))))...((((....((((((((((.....((.......))....)))))....)))))....))))..))))................. ( -23.00)
>consensus
CGAAUCUUCCGUCCAGUUUGCGGACGGGCGACUUG_AUUCCUCGACCAAGUCUGGUGCCGAUGUAACGGCAGAUAAAUGAUCUUUAGUUAAACUUUAUUAAAUAUUUGUUGG
........((((((.......))))))..((((((...........))))))...(((((......)))))..(((..(((.((((((........)))))).)))..))). (-21.17 = -21.05 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 16,421,919 – 16,422,030
Length 111
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 84.90
Mean single sequence MFE -41.92
Consensus MFE -31.20
Energy contribution -30.08
Covariance contribution -1.13
Combinations/Pair 1.32
Mean z-score -2.07
Structure conservation index 0.74
SVM decision value 0.94
SVM RNA-class probability 0.885464
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16421919 111 + 22224390
CCGCCGUUACAUCGGCAACAAACUUGGUCGAGGAAU-CAAGUCGCCCGUCCGCAAACUGGACGGAAGAUUUGCCACCUUGAGGUGGAAUCACCGGCAACCGGCGUGAUCGCU
..((.(((((..((((((.....)))((((..((..-((((((..(((((((.....)))))))..))))))(((((....)))))..))..))))..)))..))))).)). ( -44.00)
>DroSec_CAF1 42630 111 + 1
CUGCCGUUACAUCGGCAUCAGACUUGGUCGAGGAAC-CAAGUCGCCCGUCCGCAAACUGGACGGAACAUUCGCCACCUUGAGGUGAAACCACCGCCAACCGGCGUGAUCGCU
..((.(((((...(((....((((((((......))-))))))..(((((((.....))))))).......))).......((((....))))(((....)))))))).)). ( -45.40)
>DroSim_CAF1 38906 111 + 1
CUGCCGUUACAUCGGCACCAGACUUGGUCGAGGAAC-CAAGUCGCCCGUCCGCAAACUGGACGGAACAUUCGCCACCUUGAGGUGGAACCACCGCCAACCGGCGUGAUCGCU
..((.(((((...(((....((((((((......))-))))))..(((((((.....))))))).......))).......((((....))))(((....)))))))).)). ( -46.80)
>DroYak_CAF1 40060 112 + 1
CUGCCGUUACAUUGGCACUGGACUUGGCAGAGGAUUAGAAGUCGGGUGUCCAGAACGUGGACAAAAGAUUCAUUACAUUGAGGUGGAACAACCGGCAACCGGCGUGACCGCU
..((.(((((.((((..((((.(((....)))..))))..(((((.((((((.....))))))...(.((((((.......)))))).)..)))))..)))).))))).)). ( -31.50)
>consensus
CUGCCGUUACAUCGGCACCAGACUUGGUCGAGGAAC_CAAGUCGCCCGUCCGCAAACUGGACGGAACAUUCGCCACCUUGAGGUGGAACCACCGCCAACCGGCGUGAUCGCU
..((.(((((..(((.....((((((((......)).))))))..(((((((.....)))))))....((((((.......))))))...........)))..))))).)). (-31.20 = -30.08 +  -1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:17 2006