Locus 6546

Sequence ID 3L_DroMel_CAF1
Location 17,297,874 – 17,297,970
Length 96
Max. P 0.522233
window10649

overview

Window 9

Location 17,297,874 – 17,297,970
Length 96
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 74.79
Mean single sequence MFE -32.67
Consensus MFE -14.15
Energy contribution -16.84
Covariance contribution 2.69
Combinations/Pair 1.13
Mean z-score -2.29
Structure conservation index 0.43
SVM decision value -0.02
SVM RNA-class probability 0.522233
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17297874 96 - 23771897
GAGAUGGAGAGCGAGGAGAGCAACCUAAAGCGUAACCCCG-----CCAACA-CCCACACAUAUUUGUGUGGGUCCGGGGAUGUGAUGAUAUGUUCCAUUUCA
(((((((((.((.(((.......)))...))....(((((-----.....(-((((((((....))))))))).))))).............))))))))). ( -40.30)
>DroGri_CAF1 9136 83 - 1
CAGACG------------UGC-UCCUCUAGUAUAGGCCGGGGCAUCCGGCAUCCCACACAUGUGUGG-----GUCUUG-AAGUGAUGAUAUGUUUCAUUUCA
.(((((------------(((-(.....)))))..(((((.....)))))...(((((....)))))-----))))((-((((((.........)))))))) ( -28.40)
>DroSec_CAF1 4892 95 - 1
GCGGUGGAGAGCGAGGAGAGCAACCUAAAGCGUAACCCCG-----CCAACA-CCCACACAUAUGUGUGUGG-UUCGGGGAUGUGAUGAUAUGUUCCAUUUCA
(..((((((.((.(((.......)))...))....(((((-----.....(-(((((((....))))).))-).))))).............))))))..). ( -31.00)
>DroSim_CAF1 4880 95 - 1
GCGGUGGAGAGCGAGGAGAGCAACCUAAAGCGUAACCCCG-----CCAACA-CCCACACAUAUGUGUGUGG-UUCGGGGAUGUGAUGAUAUGUUCCAUUUCA
(..((((((.((.(((.......)))...))....(((((-----.....(-(((((((....))))).))-).))))).............))))))..). ( -31.00)
>consensus
GAGAUGGAGAGCGAGGAGAGCAACCUAAAGCGUAACCCCG_____CCAACA_CCCACACAUAUGUGUGUGG_UUCGGGGAUGUGAUGAUAUGUUCCAUUUCA
(((((((((..........((........))....(((((.............(((((((....)))))))...))))).............))))))))). (-14.15 = -16.84 +   2.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:52 2006