Locus 3752

Sequence ID X_DroMel_CAF1
Location 9,959,868 – 9,959,983
Length 115
Max. P 0.761032
window6163

overview

Window 3

Location 9,959,868 – 9,959,983
Length 115
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.03
Mean single sequence MFE -19.82
Consensus MFE -16.10
Energy contribution -16.47
Covariance contribution 0.37
Combinations/Pair 1.04
Mean z-score -1.73
Structure conservation index 0.81
SVM decision value 0.50
SVM RNA-class probability 0.761032
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9959868 115 + 22224390
CGCCGCCAGCGAAACAGAA----AAAA-GCUGAAAGAAAAAAAAUUGUAAGAAAAAAUAAAGGAAAAAGACAGCUGGUGCUGGUUGGGGACCGGCUUGUUUAUGUAAAAAAUGUAAAAUC
....((((((....(((..----....-.)))............((((........))))............))))))(((((((...)))))))...(((((((.....)))))))... ( -20.90)
>DroSim_CAF1 9538 117 + 1
CGCCGCCAGCAAAACUGAAAAAAAAAA-GCUGAAAGAAA--AAAUUGUAAGAAAAAAUAAAGGAAAAAGACAGCUGGUGCUGGUUGGGGACCGGCUUGUUUAUGUAAAAAAUGUAAAAUC
.((((((((((...............(-((((.......--...((((........))))..........)))))..))))))).(....).)))...(((((((.....)))))))... ( -21.28)
>DroEre_CAF1 22440 107 + 1
CGCCGCCAGCAAAACGGAA----AAAACUCUGAA----A--AAAUUGUAAGAAAAAAUAAAGGAAAAAGACAACUGGU---GGUUGGGGACCGGCUUGUUUAUGUAAAAAAUGUAAAAUC
.((((((((.....((((.----.....))))..----.--...((((........)))).............)))))---((((...)))))))...(((((((.....)))))))... ( -17.10)
>DroYak_CAF1 22365 105 + 1
CGCCGCCAGCAAAACAGAA----AAAA-GCUGAA----A--AAAUUGUAAGGA-AAAUAAAGGAAAAAGACAGCUGGU---GGUUGGGGACCGGCUUGUUUAUGUAAAAAAUGUAAAAUC
.(((((((((....(((..----....-.)))..----.--............-.......(........).))))))---((((...)))))))...(((((((.....)))))))... ( -20.00)
>consensus
CGCCGCCAGCAAAACAGAA____AAAA_GCUGAA____A__AAAUUGUAAGAAAAAAUAAAGGAAAAAGACAGCUGGU___GGUUGGGGACCGGCUUGUUUAUGUAAAAAAUGUAAAAUC
.(((((((((....(((............)))............((((........))))............))))))...((((...)))))))...(((((((.....)))))))... (-16.10 = -16.47 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:32 2006