Locus 949

Sequence ID 3R_DroMel_CAF1
Location 3,127,760 – 3,127,861
Length 101
Max. P 0.954067
window1516

overview

Window 6

Location 3,127,760 – 3,127,861
Length 101
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 94.06
Mean single sequence MFE -50.47
Consensus MFE -47.28
Energy contribution -48.02
Covariance contribution 0.75
Combinations/Pair 1.08
Mean z-score -2.03
Structure conservation index 0.94
SVM decision value 1.44
SVM RNA-class probability 0.954067
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3127760 101 + 27905053
GGCAUCAGGAAGGGCGAGGGGGCGGAUGUGCCGGGCGUGGGCGGACCAAGGGCGCCCAUGUAGCCCCCACGCUUCAGCUGAUCCUUCAGCAUGUCCAUGUC
(((((..(((.(((((.((((((((.....))..(((((((((..(....).))))))))).)))))).)))))..(((((....)))))...)))))))) ( -52.60)
>DroSec_CAF1 3425 101 + 1
GGCAUCAGGAAGGGCGAGGGGGCGGGUGUGCCGGGCGUGGGCGGCCCAAGGGCGCCCAUGUAGCCCCCACGCUUCAGCUGAUCCUUCAGCAUGUCCAUGUC
(((((..(((.(((((.((((((.((....))..(((((((((.((....))))))))))).)))))).)))))..(((((....)))))...)))))))) ( -56.90)
>DroSim_CAF1 3803 101 + 1
GGCAUCAGGAAGGGCGAGGGGGCGGGUGUGCCGGGCGCGGGCGGCCCAAGGGCGCCCAUGUAGCCCCCACGCUUCAGCUGAUCCUUCAGCAUGUCCAUGUC
(((((..(((.(((((.((((((....((((...))))(((((.((....))))))).....)))))).)))))..(((((....)))))...)))))))) ( -52.60)
>DroYak_CAF1 3606 101 + 1
GGCAUCAGAAAGGGCGAGGGGGUGGAUGUACCGGGAGUGGGCGGUCCGAGGGCGCCCAUGUAUCCUCCACGCUUCAGCUGAUCCUUCAGCAUGUCCAUGUU
...........(((((.(((((((((......(((.(((((((.((....)))))))))...)))))))).)))).(((((....))))).)))))..... ( -39.80)
>consensus
GGCAUCAGGAAGGGCGAGGGGGCGGAUGUGCCGGGCGUGGGCGGCCCAAGGGCGCCCAUGUAGCCCCCACGCUUCAGCUGAUCCUUCAGCAUGUCCAUGUC
(((((..(((.(((((.((((((((.....))..(((((((((.((....))))))))))).)))))).)))))..(((((....)))))...)))))))) (-47.28 = -48.02 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:20 2006