Locus 1820

Sequence ID 3R_DroMel_CAF1
Location 5,199,799 – 5,199,893
Length 94
Max. P 0.889247
window2995

overview

Window 5

Location 5,199,799 – 5,199,893
Length 94
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 93.88
Mean single sequence MFE -22.10
Consensus MFE -17.28
Energy contribution -18.28
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.12
Structure conservation index 0.78
SVM decision value 0.96
SVM RNA-class probability 0.889247
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5199799 94 + 27905053
GCGAGU-AAUCGCAUAAUGGAACCCACUUGGUUGCC-CCAACUCGAUGAAUCCACCGACACCUAUCUGCUCCAUUGAGUAUCUCUCACACUUUCUU
((((..-..))))..((((((......((((.....-)))).(((.((....)).)))...........))))))(((.....))).......... ( -18.60)
>DroSec_CAF1 5802 94 + 1
GCGAGU-AAUCGCAUAAUGGAGCCCACUCGGCUGCC-CCAACUCGAUGAAUCCACCGACACCUAUCUGCUCCAUUGAGUAUCUCUCACACUUUCUU
((((..-..))))..((((((((......((.....-))...(((.((....)).))).........))))))))(((.....))).......... ( -23.10)
>DroSim_CAF1 6711 94 + 1
GCGAGU-CAUCGCAUAAUGGAGCCCACUCGGCUGCC-CCAACUCGAUGAAUCCACCGACACCUAUCUGCUCCAUUGAGUAUCUCUCACACUUUCUU
((((..-..))))..((((((((......((.....-))...(((.((....)).))).........))))))))(((.....))).......... ( -21.60)
>DroEre_CAF1 5779 94 + 1
GCGAGU-AAUCGCAUAAUGGUGCCCACUCGGGCGUC-CCAACUCGAUGAAUCCACCGACACCUAUCUGCUCCAUUGAGUAUCUCUCACACUUUCUU
((((..-..)))).....(((((((....))))).)-)..((((((((.......................))))))))................. ( -24.20)
>DroYak_CAF1 6748 96 + 1
GCGAGUUAAUCGCAUAAUGGUAACCACUCGGGCGCCCCCAACUCGAUGGAUUCACCGACACCUAUCUGCUCCAUUGAGUAUCUCUCACACUUUCUU
((((.....)))).....(((..((....))..)))....((((((((((...................))))))))))................. ( -23.01)
>consensus
GCGAGU_AAUCGCAUAAUGGAGCCCACUCGGCUGCC_CCAACUCGAUGAAUCCACCGACACCUAUCUGCUCCAUUGAGUAUCUCUCACACUUUCUU
((((.....))))..((((((((......((......))...(((.((....)).))).........))))))))(((.....))).......... (-17.28 = -18.28 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:18 2006