Locus 4244

Sequence ID 3R_DroMel_CAF1
Location 11,382,696 – 11,382,800
Length 104
Max. P 0.621362
window6883

overview

Window 3

Location 11,382,696 – 11,382,800
Length 104
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.94
Mean single sequence MFE -26.18
Consensus MFE -19.68
Energy contribution -19.88
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.75
SVM decision value 0.18
SVM RNA-class probability 0.621362
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11382696 104 - 27905053
AAA---------------GCCAAAAUAAAUGAAAUAAAGCCAAACAGAAUAACGCCCGUCAUCCGGAGAUAAGGCCAGCUUGU-UGGGGUGACAAACUCCACACCACAGGAGGAUGACUU
...---------------.......................................(((((((((........))..(((((-((((((.....))))))....))))).))))))).. ( -24.00)
>DroSec_CAF1 130417 105 - 1
AAG---------------CCCAAAAUAAAUGAAAUAAAGCCAAACAGAAUAACGCCCGUCAUCCGGAGAUAAGGCCAGCUUGUUUGGGGUGACAAACUCCACACCACAGGAGGAUGACUU
...---------------.......................................(((((((((........))..(((((.((((((.....))))))....))))).))))))).. ( -23.90)
>DroSim_CAF1 121537 105 - 1
AAG---------------CCCAAAAUAAAUGAAAUAAAGCCAAACAGAAUAACGCCCGUCAUCCGGAGAUAAGGCCAGCUUGUUUGGGGUGACAAACUCCACACCACAGGAGGAUGACUU
...---------------.......................................(((((((((........))..(((((.((((((.....))))))....))))).))))))).. ( -23.90)
>DroEre_CAF1 117917 117 - 1
AAGGCAGCGGAGCUGCAACCAAAAAUAAAUGAAAUAAAGCCAAACAAAAUAACGCCCGUCAUCCGAAGAUAAGGCAAGCUUGUU-CGGGUGACAAACUCCACACCACAGGAGGAUGUG--
...(((((...)))))...........................(((...........(((((((((..(((((.....))))))-))))))))...((((........))))..))).-- ( -30.40)
>DroYak_CAF1 120525 117 - 1
AAGGCAGUGGAGCUGCAUCCCAAAGUAAAUGAAAUAAAGCCAAACAGAAAAACGCCCGUCAUCCGAAGAUAAGGCCAGCUUGUU-CGGGUGACAAACUCCACACCACAGGAGGAUGAC--
...((((.....))))((((.....................................(((((((((..(((((.....))))))-))))))))....(((........)))))))...-- ( -28.70)
>consensus
AAG_______________CCCAAAAUAAAUGAAAUAAAGCCAAACAGAAUAACGCCCGUCAUCCGGAGAUAAGGCCAGCUUGUUUGGGGUGACAAACUCCACACCACAGGAGGAUGACUU
.........................................................(((((((...((((((.....))))))..)))))))...((((........))))........ (-19.68 = -19.88 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:16 2006