Locus 519

Sequence ID 3L_DroMel_CAF1
Location 1,529,878 – 1,529,987
Length 109
Max. P 0.916767
window777

overview

Window 7

Location 1,529,878 – 1,529,987
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.03
Mean single sequence MFE -41.60
Consensus MFE -34.10
Energy contribution -33.78
Covariance contribution -0.32
Combinations/Pair 1.21
Mean z-score -1.94
Structure conservation index 0.82
SVM decision value 1.11
SVM RNA-class probability 0.916767
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1529878 109 + 23771897
UUCAAUGCGGGUCACUGGGAAAUGCAGACACAUUCACGGUGCCGA-GCGGAUGACGUGAGCAG-----AAGGGAGAGAGAGCGAAAGCUUGUUCUCUGUCU-----UUUCUACAGAGGCC
.........((((.(((...............((((((...((..-..))....)))))).((-----((((((.(((((((((....))))))))).)))-----))))).))).)))) ( -39.10)
>DroSec_CAF1 8768 109 + 1
UUCAAUGCGGGUCACUGGGAAAUGCAGACACAUUCACGGUGCCGA-GCGGAUGACGUGAGCAG-----AAGGGAGAGAGAGCGAAAGCUUGUUCUCUUUCU-----UUUCUUCAGAGGCC
.........((((.((((..............((((((...((..-..))....)))))).((-----((((((((((((((((....)))))))))))))-----))))))))).)))) ( -40.20)
>DroSim_CAF1 8826 109 + 1
UUCAAUGCGGGUCACUGGGAAAUGCAGACACAUUCACGGUGCCGA-GCGGAUGACGUGAGCAG-----AAGGGAGAGAGAGCGAAAGCUUGUUCUCUUUCU-----UUUCUUCAGAGGCC
.........((((.((((..............((((((...((..-..))....)))))).((-----((((((((((((((((....)))))))))))))-----))))))))).)))) ( -40.20)
>DroEre_CAF1 8877 115 + 1
UUCAAUGCGGGUCACUGGGAGAUGCAGACACAUUCACGCUGCCGCCAAGGAUGACGUGAGCAGUUCGAGAGAGGGAGUAAGCGAAAGCUUGUUCUCUUGCU-----GUUCAUCAGGGGCC
.........((((.(((((....((((.(........)))))..)).........(((((((((((....))((((((((((....))))))))))..)))-----))))))))).)))) ( -40.10)
>DroYak_CAF1 8928 119 + 1
UUCAAUGCGGGUCACUGGGAACUGCAGACACAUUCACGCUGUCGC-GGGGAUGACGUGAGCAGUUCGAGAGAGGGAGUGAGCGAAAGCUUGUGCUCUUUCUGUUCUGUUCUUCAGGGGCC
.........((((.(((((((((((..((.(((((.(((....))-).)))))..))..)))))))((((((((((((((((....))))..))))))))).)))......)))).)))) ( -48.40)
>consensus
UUCAAUGCGGGUCACUGGGAAAUGCAGACACAUUCACGGUGCCGA_GCGGAUGACGUGAGCAG_____AAGGGAGAGAGAGCGAAAGCUUGUUCUCUUUCU_____UUUCUUCAGAGGCC
.........((((.((((((((..........((((((...((.....))....)))))).........(((((((((((((....))))..))))))))).....)))).)))).)))) (-34.10 = -33.78 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:05 2006