Locus 4594

Sequence ID 2L_DroMel_CAF1
Location 13,152,036 – 13,152,164
Length 128
Max. P 0.865623
window7249 window7250

overview

Window 9

Location 13,152,036 – 13,152,141
Length 105
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 78.15
Mean single sequence MFE -26.02
Consensus MFE -15.02
Energy contribution -13.82
Covariance contribution -1.20
Combinations/Pair 1.27
Mean z-score -2.03
Structure conservation index 0.58
SVM decision value 0.85
SVM RNA-class probability 0.865623
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13152036 105 - 22407834
CAACUUUCGAAAACACCUCCGUCAAGUGGCGGAAUGUUUUCCACUUUUGUUAGUCAACCUGGCAAC-GGCUU-----UUCCGCCCACUGCCCUCCACGUACUUAG-AUAUUC
........(((((((..((((((....)))))).)))))))...................((((..-(((..-----....)))...))))..............-...... ( -24.90)
>DroPse_CAF1 16655 97 - 1
GAACUUUGGAAAACACCUCUGCCAAGUGGCGGCAUGUUUUUCAGUUUUGUU--UCCACUUGGCGAC-AGCUCCAGUUCGCCAGCCAC-----UCCAC-----UAU-CUA-UC
((((.((((((((((...(((((....)))))..))))))))))....)))--)....(((((((.-.((....)))))))))....-----.....-----...-...-.. ( -26.40)
>DroSec_CAF1 1051 107 - 1
CAACUUUCGAAAACACCUCCGUCAAGUGGCGGAAUGUUUUCCACUUUUGUUAGUCAACCUGGCAACCGGCUU-----UUCCGCCCACUGCCCUCCGCGUACUUAGAAUAUUC
.....((((((((((..((((((....)))))).)))))))...................((((...(((..-----....)))...)))).............)))..... ( -26.10)
>DroYak_CAF1 1181 105 - 1
CAACUUUCGAAAACACCUCCGUCAAGUGGCGGAAUGUUUUCCACUUUUGUUAGUCAGCCUGGCUAC-GGCUU-----UUCCGCCCACUGCCCUCCACGUACUUAG-GUAUUC
........(((((((..((((((....)))))).))))))).((((..((..((......(((...-(((..-----....)))....)))....))..))..))-)).... ( -26.30)
>DroPer_CAF1 16828 97 - 1
GAACUUUGGAAAACACCUCUGCCAAGUGGCGGCAUGUUUUUCAGUUUUGUU--UCCACUUGGCGAC-AGCUCCAGUUCGCCAGCCAC-----UCCAC-----UAU-CUA-UC
((((.((((((((((...(((((....)))))..))))))))))....)))--)....(((((((.-.((....)))))))))....-----.....-----...-...-.. ( -26.40)
>consensus
CAACUUUCGAAAACACCUCCGUCAAGUGGCGGAAUGUUUUCCACUUUUGUUAGUCAACCUGGCAAC_GGCUU_____UUCCGCCCACUGCCCUCCACGUACUUAG_AUAUUC
........(((((((...(((((....)))))..)))))))................((.(....).))........................................... (-15.02 = -13.82 +  -1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,152,070 – 13,152,164
Length 94
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 80.56
Mean single sequence MFE -25.44
Consensus MFE -15.52
Energy contribution -14.56
Covariance contribution -0.96
Combinations/Pair 1.23
Mean z-score -1.93
Structure conservation index 0.61
SVM decision value 0.44
SVM RNA-class probability 0.735600
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13152070 94 - 22407834
GCGGAAUAU-------GCCACACACUUGAACAACUUUCGAAAACACCUCCGUCAAGUGGCGGAAUGUUUUCCACUUUUGUUAGUCAACCUGGCAAC-GGCUU
((.(....(-------((((........(((((.....(((((((..((((((....)))))).))))))).....)))))........))))).)-.)).. ( -26.99)
>DroPse_CAF1 16683 96 - 1
---GCAUACACAGACAACAACACUCUUGAAGAACUUUGGAAAACACCUCUGCCAAGUGGCGGCAUGUUUUUCAGUUUUGUU--UCCACUUGGCGAC-AGCUC
---((........................((((((..((((((((...(((((....)))))..))))))))))))))(((--.((....)).)))-.)).. ( -23.00)
>DroSec_CAF1 1086 95 - 1
GCGGAAUAU-------GCCACACACUUGAACAACUUUCGAAAACACCUCCGUCAAGUGGCGGAAUGUUUUCCACUUUUGUUAGUCAACCUGGCAACCGGCUU
.(((....(-------((((........(((((.....(((((((..((((((....)))))).))))))).....)))))........))))).))).... ( -28.19)
>DroYak_CAF1 1215 94 - 1
GCGGAAUAU-------GCCACACACUUGAACAACUUUCGAAAACACCUCCGUCAAGUGGCGGAAUGUUUUCCACUUUUGUUAGUCAGCCUGGCUAC-GGCUU
.........-------(((.........(((((.....(((((((..((((((....)))))).))))))).....)))))((((.....))))..-))).. ( -26.00)
>DroPer_CAF1 16856 83 - 1
---GC-------------AACACUCUUGAAGAACUUUGGAAAACACCUCUGCCAAGUGGCGGCAUGUUUUUCAGUUUUGUU--UCCACUUGGCGAC-AGCUC
---((-------------...........((((((..((((((((...(((((....)))))..))))))))))))))(((--.((....)).)))-.)).. ( -23.00)
>consensus
GCGGAAUAU_______GCCACACACUUGAACAACUUUCGAAAACACCUCCGUCAAGUGGCGGAAUGUUUUCCACUUUUGUUAGUCAACCUGGCAAC_GGCUU
.........................((((..(((....(((((((...(((((....)))))..))))))).......)))..))))((.(....).))... (-15.52 = -14.56 +  -0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:03 2006