Locus 3173

Sequence ID 2R_DroMel_CAF1
Location 10,834,563 – 10,834,661
Length 98
Max. P 0.711479
window5223

overview

Window 3

Location 10,834,563 – 10,834,661
Length 98
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 76.62
Mean single sequence MFE -33.29
Consensus MFE -10.06
Energy contribution -9.87
Covariance contribution -0.19
Combinations/Pair 1.27
Mean z-score -2.64
Structure conservation index 0.30
SVM decision value 0.38
SVM RNA-class probability 0.711479
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10834563 98 - 20766785
CAAGGAAAAGCUGGCGGCAAGCAGUCGUAUUG---GUAUCUCUUUUGAUGGAGAAGGAGAAGAUGAUG---GUGAUCGGAAGAUGCCGCCAAAGCUUGUAAAAA
.......(((((((((((..((.(((((....---...((((((((......))))))))..))))).---)).(((....)))))))))..)))))....... ( -32.80)
>DroVir_CAF1 51118 95 - 1
CAAGGAGAAAAUUGCGGCCAGCAGUCGCAUGGCCAGCAUCUCGUUCGAUGGCG------GCGACGAUG---CCGAGCGCAAGACGCCGCCCAAGCUGGUCAAGA
............((((((.....))))))(((((((((((......)))((((------(((.(..((---(.....))).).)))))))...))))))))... ( -39.70)
>DroGri_CAF1 47106 95 - 1
CAAGGAGAAAAUCGCGGCCAGCAGUCGCAUGG---GCAUCUCAUUCGAUGGUGGCG---UCGAUGAUG---CUGAGAACAAGACGCCACCCAAACUGGUGAAGA
................(((((..((((.((((---(...))))).))))(((((((---((.......---..........)))))))))....)))))..... ( -30.83)
>DroSim_CAF1 42169 98 - 1
CAAGGAAAAGCUGGCGGCCAGCAGUCGUAUUG---GUAUCUCUUUUGAUGGGGAAGGAGAAGAUGAUG---GAGAUCGGAAGAUGCCGCCAAAGCUUGUAAAAA
.......(((((((((((......((.(((((---...((((((((......))))))))...)))))---)).(((....)))))))))..)))))....... ( -30.10)
>DroEre_CAF1 47566 98 - 1
CAAGGAAAAACUGGCGGCAAGCAGUCGUAUCG---GUAUCUCUUUUGAUGGUGAAGGGGAAGAUGAUG---GAGACCGGAAGAUGCCGCCAAAGCUUGUAAAAA
((((.......((((((((....(((.(((((---...((((((((......))))))))...)))))---..)))(....).))))))))...))))...... ( -31.30)
>DroAna_CAF1 41744 101 - 1
CAAGGAAAAGCUAGCAGCCACCAGUCGGAUCG---GCCUCUCCUUCGACGGAGAAGCAGACGAGGACGGAGGAGAUCGGAAGAUGCCGCCCAAGCUGGUGAAGA
.........((.....))(((((((..(..((---((.(((((((((.((..........))....)))))))))((....)).))))..)..))))))).... ( -35.00)
>consensus
CAAGGAAAAACUGGCGGCCAGCAGUCGUAUCG___GCAUCUCUUUCGAUGGAGAAGGAGAAGAUGAUG___GAGAUCGGAAGAUGCCGCCAAAGCUGGUAAAAA
.............(((((..((....))........((((......))))..................................)))))............... (-10.06 =  -9.87 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:13 2006