Locus 5923

Sequence ID 2R_DroMel_CAF1
Location 18,677,459 – 18,677,562
Length 103
Max. P 0.615129
window9505

overview

Window 5

Location 18,677,459 – 18,677,562
Length 103
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 65.33
Mean single sequence MFE -19.78
Consensus MFE -4.27
Energy contribution -4.39
Covariance contribution 0.12
Combinations/Pair 1.25
Mean z-score -2.35
Structure conservation index 0.22
SVM decision value 0.17
SVM RNA-class probability 0.615129
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18677459 103 + 20766785
GGGGAACUGCAGGAAAGUACAAAAUAAUAAUUUGAAU---AAUUACACCAAUUGUAUGUAUGUAUAUAAACAAACUAU-UGAGCUAGAAAACCAUGCUAGUUCCCAU
.((((((((((((...((((((.....(((((.....---)))))......))))))((.(((......))).))...-............)).))).))))))).. ( -22.70)
>DroSec_CAF1 41077 94 + 1
GGGGAACUACAGGAAAGUACAAAGUAAUAAUUUGAAUUUUAACUGCACUAAUUGUAU--------AUA----AACUAU-UAAGCUAGAAGACCAUGCUAGUUCCCAU
.(((((((((((((((((.((((.......)))).)))))..((((..((((.((..--------...----.)).))-)).)).))....)).)).)))))))).. ( -20.60)
>DroSim_CAF1 41398 94 + 1
GGGGAACUGCAGGGAAGUACAAAGUAAUAAUUUGAAUUUUAGCUGCAAUAAUUGUUU--------AUA----AACAAU-UAAGGUAGAACACCAUGCUAGUUCCCAU
.(((((((((((((((((.((((.......)))).)))))..((((..((((((((.--------...----))))))-))..))))....)).))).))))))).. ( -31.30)
>DroWil_CAF1 56434 86 + 1
GUGGAACUACACGGAGGG-----GGGAUAAAAUGAAAUUGAAAUGCAAAAAUUAUUAUU------AUA----UGCCAU-GUCCUUUCAAA-----ACUAAUUUCCAU
(((......)))((((((-----((.(((.(((((((((..........)))).)))))------.))----).))..-..))))))...-----............ ( -14.40)
>DroYak_CAF1 41467 93 + 1
GGGGAACUGCAGGAAAAUAAAAAAUAA--AUCCAAUUUUUAACCAUACUAAUUGUUA--------AUC----AUCUGUAUAAGCUAAAAAACCUAGUUAAUUUCCAU
((..(...(((((......((((((..--.....))))))....((((....((...--------..)----)...))))...........))).))...)..)).. (  -9.90)
>consensus
GGGGAACUGCAGGAAAGUACAAAGUAAUAAUUUGAAUUUUAACUGCACUAAUUGUUU________AUA____AACUAU_UAAGCUAGAAAACCAUGCUAGUUCCCAU
.((((((((........................................................................................)))))))).. ( -4.27 =  -4.39 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:11 2006