Locus 4109

Sequence ID 2L_DroMel_CAF1
Location 11,805,195 – 11,805,296
Length 101
Max. P 0.967999
window6490

overview

Window 0

Location 11,805,195 – 11,805,296
Length 101
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 94.67
Mean single sequence MFE -33.68
Consensus MFE -28.30
Energy contribution -28.34
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -1.96
Structure conservation index 0.84
SVM decision value 1.62
SVM RNA-class probability 0.967999
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11805195 101 + 22407834
GAAAAGUGGGCGGGUUUCGUUUCGGGCAUGAAAAGUACUGAUGAAGCCAAGCACAGAACGCAAGACAAAUGGCCCAAUCUACAAAGGGGCUGGACC-CCCGC
......(((((.(((((((..((((...(....)...)))))))))))..........(....).......))))).........((((......)-))).. ( -29.70)
>DroSec_CAF1 12597 101 + 1
GAAAAGUGGGCGGGUUUCGUUUCGGGCAUGUAAAGUGCUGAUGAAGCCAAGCACAGAACGCAAGACAAAUGGCCCAAUCUACAAAGGGGCUGGACC-CCCGC
......(((((.(((((((((...(((((.....))))))))))))))..........(....).......))))).........((((......)-))).. ( -33.50)
>DroSim_CAF1 12529 101 + 1
GAAAAGUGGGCGGGUUUCGUUUCGGGCAUGUAAAGUGCUGAUGAAGCCAAGCACAGAACGCAAGACAAAUGGCCCAAUCUACAAAGGGGCUGGACC-CCCGC
......(((((.(((((((((...(((((.....))))))))))))))..........(....).......))))).........((((......)-))).. ( -33.50)
>DroEre_CAF1 11362 102 + 1
AAAAAGUGGGCGGGUUUCGUUUCGAGCAUGUAAAGUGCUGAUGAAGCCAAGCACAGAACGCAAGACAAAUGGCCCAAUCUGCAAAGGGGGUGGACCCCCCGC
......(((((.(((((((((...(((((.....))))))))))))))..........(....).......))))).........(((((....)))))... ( -36.90)
>DroYak_CAF1 12352 101 + 1
AAAAAGUGGGCGGGUUUCGUUUGGGGCAUGUAAAGUGCUGAUGAAGCCAAGCACAGAGCACAAGACAAAUGGCCCAAUCUGAAAAGGGGGUGGACU-CCCGC
......(((((.(((((((((...(((((.....))))))))))))))..((.....))............))))).........(((((....))-))).. ( -34.80)
>consensus
GAAAAGUGGGCGGGUUUCGUUUCGGGCAUGUAAAGUGCUGAUGAAGCCAAGCACAGAACGCAAGACAAAUGGCCCAAUCUACAAAGGGGCUGGACC_CCCGC
......(((((.(((((((((...(((((.....))))))))))))))..........(....).......)))))..........(((........))).. (-28.30 = -28.34 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:51 2006