Locus 3861

Sequence ID 3L_DroMel_CAF1
Location 11,171,897 – 11,171,987
Length 90
Max. P 0.957267
window6010

overview

Window 0

Location 11,171,897 – 11,171,987
Length 90
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 81.25
Mean single sequence MFE -32.44
Consensus MFE -19.49
Energy contribution -20.81
Covariance contribution 1.32
Combinations/Pair 1.15
Mean z-score -2.57
Structure conservation index 0.60
SVM decision value 1.48
SVM RNA-class probability 0.957267
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11171897 90 - 23771897
CUGAACCAACACAGCUGUUUUGCGAAAGCGGGAUAGCACCUUCAACAGUGCUGCCCCCCACGCAACUAACAG--------CAGCGGUUGUGCAGACUU
(((...((((...(((((((((((...(.(((.((((((........))))))))))...)))))..)))))--------)....))))..))).... ( -32.40)
>DroSec_CAF1 31965 87 - 1
CUGAACCAA--CAGCUGUUUUGCGAAAGCGGGAGAGCACCAUCAACAGUUCUGCC-CCCACGCAAGUAACAG--------CAGCGGGUGCGCAGACUU
(((.(((..--(.((((((..((....))((((((((..........))))).))-)..((....)))))))--------).)..)))...))).... ( -30.60)
>DroSim_CAF1 31777 88 - 1
CUGAACCAA--CAGCUGUUUUGCGAAAACGGGAGAGCACCAUCAACAGUGCUGCCCCCCACGCAAGUAACAG--------CAGCGGGUGCGCAGACUU
(((.(((..--(.(((((((((((.....(((..(((((........)))))..)))...)))))..)))))--------).)..)))...))).... ( -32.20)
>DroEre_CAF1 33137 90 - 1
------CAA--CAGUUGUUUUGCGAAAGCGAGACAGCACUGUUAACAUCGCUGCCCCCCACGCAAGUAACAGUAGUAGCGCAGCGGGUGUGCAGACUU
------...--..((((((((((....)))))))))).((((..((((((((((.....((....))....((....))))))).))))))))).... ( -36.30)
>DroYak_CAF1 34438 96 - 1
CUGAAUUAA--CAGCUGUUUUGCGAAAGCGAGAUAGAACCAUCAACAGCGGGCCCCCCCACGCAAGUAACAGUUGUAGCGCCGCGGGUGUGCAGACUU
(((......--...(((((((((....)))))))))........((((((((....)))((....))....))))).(((((...))))).))).... ( -30.70)
>consensus
CUGAACCAA__CAGCUGUUUUGCGAAAGCGGGAGAGCACCAUCAACAGUGCUGCCCCCCACGCAAGUAACAG________CAGCGGGUGUGCAGACUU
.............((((((((((....)))))))))).............((((.(.((.(((...................))))).).)))).... (-19.49 = -20.81 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:33 2006