Locus 9478

Sequence ID 3R_DroMel_CAF1
Location 25,083,152 – 25,083,260
Length 108
Max. P 0.876978
window15179

overview

Window 9

Location 25,083,152 – 25,083,260
Length 108
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 83.66
Mean single sequence MFE -40.23
Consensus MFE -31.48
Energy contribution -32.72
Covariance contribution 1.24
Combinations/Pair 1.24
Mean z-score -2.65
Structure conservation index 0.78
SVM decision value 0.90
SVM RNA-class probability 0.876978
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25083152 108 + 27905053
GCCUGCAAAGUGUGCGAAA--AAAGCGUUUGAGAUACUUUUGUGCGCGCGCGCUUUUCGCAAAUCACUGCCAAAAGGGUUAAGGGUGGUGCGGUGGGCAGGCAUGGGUUA
((((((((((((((((..(--((((..((...))..))))).....))))))))))((((..(((((((((.....)))....))))))...))))))))))........ ( -40.10)
>DroSec_CAF1 12286 108 + 1
GCCUGCAAAGUGUGCGAAA--AAAGCGUUUGAGAUACUUUUGUGCGCGCGCGCUUUUCGCAAAUCACUGCCAAAAGGGUUAAGGGUGGUGCGGUGGGCAGGCAUGGGUUA
((((((((((((((((..(--((((..((...))..))))).....))))))))))((((..(((((((((.....)))....))))))...))))))))))........ ( -40.10)
>DroSim_CAF1 12325 108 + 1
GCCUGCAAAGUGUGCGAAA--AAAGCGUUUGAGAUACUUUUGUGCGCGCGCGCUUUUCGCAAAUCACUGCCAAAAGGGUUAAGGGUGGUGCGGUGGGCAGGCAUGGGUUA
((((((((((((((((..(--((((..((...))..))))).....))))))))))((((..(((((((((.....)))....))))))...))))))))))........ ( -40.10)
>DroEre_CAF1 12423 110 + 1
GCCUGCGAAGUGUGCGAAAAAAAAGCGUUUGAGAUACUUUUGCGCGCGCGCGCUUUUCGCAAAUCACUGCCAAAAGGGUUAAGGGUGGUGCGGUGGGCAGGCAUGGGUUA
((((((((((((((((........((((..(((...)))..)))).))))))))))((((..(((((((((.....)))....))))))...))))))))))........ ( -44.00)
>DroYak_CAF1 12570 109 + 1
GCCUGCGAAGUGUGCGAAA-AAAAGCGUUUGAGAUACUUUUGCGCGCGCGCGCUUUUCGCAAAUCACCGCCAAAAGGGUUAAGGGUGGUGCGGUGGGCAGGCAUGGGUUA
((((((((((((((((...-....((((..(((...)))..)))).))))))))))((((....(((((((............)))))))..))))))))))........ ( -46.20)
>DroPer_CAF1 14722 83 + 1
GCCCAU---GAGUGUAUAA--CAAGCGUUUGAGAUACACUCGCGCGCGCGCGC-----GCAAAUG----CUUAAAA---UCUGGGUGGAGGGGCUGGCUG----------
((((..---((((((((..--(((....)))..))))))))(((((....)))-----))....(----((((...---..)))))....))))......---------- ( -30.90)
>consensus
GCCUGCAAAGUGUGCGAAA__AAAGCGUUUGAGAUACUUUUGCGCGCGCGCGCUUUUCGCAAAUCACUGCCAAAAGGGUUAAGGGUGGUGCGGUGGGCAGGCAUGGGUUA
((((((((((((((((........((((..(((...)))..)))).))))))))))((((....(((((((............)))))))..))))))))))........ (-31.48 = -32.72 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:35:35 2006