Locus 3404

Sequence ID 2R_DroMel_CAF1
Location 11,532,513 – 11,532,615
Length 102
Max. P 0.729227
window5559

overview

Window 9

Location 11,532,513 – 11,532,615
Length 102
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 87.46
Mean single sequence MFE -31.48
Consensus MFE -20.76
Energy contribution -22.72
Covariance contribution 1.96
Combinations/Pair 1.03
Mean z-score -2.49
Structure conservation index 0.66
SVM decision value 0.42
SVM RNA-class probability 0.729227
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11532513 102 - 20766785
UGCCGCCAACGACUGAAAAGUCGGCGGAGAGCCGCU-CGAAAAGUGCUG----CGAAGCAUUUGAAGUGGGUUUUCAGUCGUGUAUCGAUAGU-AAGCCAAAAGACAA
..........((((....))))((((((((.(((((-....(((((((.----...)))))))..))))).))))).((((.....))))...-..)))......... ( -34.60)
>DroSec_CAF1 2608 94 - 1
UGCCGCCAACGACUGAAAAGUCCGCGGAGAG-CGCU-CGAAAAGUGCUG----UGAAGCAUUUGAAGUGGGUUUUCAGACGUGUAUCGAUAGU-AAGCCA-------A
...((...(((.(((((((.(((((.(((..-..))-)...(((((((.----...)))))))...)))))))))))).)))....)).....-......-------. ( -26.90)
>DroSim_CAF1 2597 94 - 1
UGCCGCCAACGACUGAAAAGUCCGCGGAGAG-CGCU-CGAAAAGUGCUG----CGAAGCAUUUGAAGUGGGUUUUCAGACGUGUAUCGAUAGU-AAGCCA-------A
...((...(((.(((((((.(((((.(((..-..))-)...(((((((.----...)))))))...)))))))))))).)))....)).....-......-------. ( -26.90)
>DroEre_CAF1 2947 97 - 1
UGCCGCCAACGACUGAAAAGUCGGCGGAGAG-CGAU-GGAAAAGUGCUGAGAAGUAAGUAUUUGAAGUGG--UUUCAGUCGUGUAUCGAUAGUGAAGCCA-------A
..(((((...((((....)))))))))....-....-....(((((((........)))))))....(((--(((((((((.....))))..))))))))-------. ( -32.00)
>DroYak_CAF1 2607 94 - 1
UGCCGCCAACGACUGAAAAGUCGACGGAGAG-CGCUUGAAAAAGUGCUG----GCAAGUAUUUGAAGUGG--UUUCAGUCUUGUAUCGAUAGUGAAGCCA-------A
((((.((..(((((....)))))..))..((-(((((....))))))))----)))...........(((--(((((.(.(((...))).).))))))))-------. ( -37.00)
>consensus
UGCCGCCAACGACUGAAAAGUCGGCGGAGAG_CGCU_CGAAAAGUGCUG____CGAAGCAUUUGAAGUGGGUUUUCAGUCGUGUAUCGAUAGU_AAGCCA_______A
..((((...(((((....))))))))).....((((.....(((((((........)))))))..))))(((((...((((.....))))....)))))......... (-20.76 = -22.72 +   1.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:41 2006