Locus 4139

Sequence ID 3L_DroMel_CAF1
Location 12,102,640 – 12,102,749
Length 109
Max. P 0.517165
window6430

overview

Window 0

Location 12,102,640 – 12,102,749
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.73
Mean single sequence MFE -31.08
Consensus MFE -19.06
Energy contribution -20.54
Covariance contribution 1.48
Combinations/Pair 1.15
Mean z-score -1.85
Structure conservation index 0.61
SVM decision value -0.03
SVM RNA-class probability 0.517165
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12102640 109 + 23771897
UUUUAGCA----UUGAUAAAGAAUCGAUGCGGCGAACAAAGCAAAC-------UUAUCAAGGAAGCCGCCUGGUAACACCUCAAUUGACAGGAGAUCAGGUGGCCAUGUAAUCUUAAUCA
.....(((----(((((.....)))))))).((.......))....-------...........((((((((((....(((........)))..))))))))))................ ( -30.30)
>DroSec_CAF1 3763 113 + 1
UUUUAGCAAUACUUGAUAAAGAAUCGAUGCGGCGAACAAAGCAAAC-------UUAUCAAGGAGGCCGCCUGGUAACACCUCAAUUGACAGGAGAUCAGGUGGUCAUGUAAACCUAAUCA
.....(((...((((((((.....((...))((.......))....-------))))))))..(((((((((((....(((........)))..))))))))))).)))........... ( -29.80)
>DroSim_CAF1 3143 113 + 1
UUUUAGCAAUACUUGAUAAAGAAUCGAUGCGGCGAACAAAGCAAAC-------UUAUCAAGGAGGCCGCCUGGUAACACCUCAAUUGACAGGAGAUCAGGUGGUCAUGUAAACCUAAUCA
.....(((...((((((((.....((...))((.......))....-------))))))))..(((((((((((....(((........)))..))))))))))).)))........... ( -29.80)
>DroEre_CAF1 3326 117 + 1
UUUUAGCAUGGGUUGAUAAAG-AGCGACCAGGCGAACAAAGCGGACUGCAAAGCUAUCGAGGA-GCUGCCUAGUAACACCUCAAUUGACAGGUGAUCU-GCGGCCAUGUAAUCCUAAUCG
.....((...(((((......-..)))))..)).........(((.((((.((((.......)-)))((((((...(((((........)))))..))-).)))..)))).)))...... ( -30.50)
>DroYak_CAF1 3275 117 + 1
UUUUAGCAUGGCUUGAUAAAGAAGCGAUCCGGCGAACAAAGCCGACUGCC-AGUUAUCAAGGA-UCUGCCUAGUAACACCUCAACUGACAGGUGAUCU-AUGGCCAUGUAAUCCUAAUCA
.....((((((((.(((......((((((((((.......)))(((....-.))).....)))-)).)).......(((((........)))))))).-..))))))))........... ( -35.00)
>consensus
UUUUAGCAAGACUUGAUAAAGAAUCGAUGCGGCGAACAAAGCAAAC_______UUAUCAAGGA_GCCGCCUGGUAACACCUCAAUUGACAGGAGAUCAGGUGGCCAUGUAAUCCUAAUCA
.....(((...((((((((............((.......))...........))))))))...((((((((((....(((........)))..))))))))))..)))........... (-19.06 = -20.54 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:19 2006