Locus 4872

Sequence ID 2R_DroMel_CAF1
Location 15,940,239 – 15,940,346
Length 107
Max. P 0.525752
window7819

overview

Window 9

Location 15,940,239 – 15,940,346
Length 107
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.24
Mean single sequence MFE -23.82
Consensus MFE -10.10
Energy contribution -9.87
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -2.09
Structure conservation index 0.42
SVM decision value -0.02
SVM RNA-class probability 0.525752
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15940239 107 - 20766785
AAUUUC-----GCCACCAUCAGAGAUCUCAACAGUUUGCUUUGAAGUGGC--AUUCAUC------UGUGUAAUUUCAUUACACGCACACUUCAGCAAUUUAGCAAUUUAAACAAACGUAU
.(((((-----..........))))).......(((((...(((((((((--.......------.(((((((...))))))))).)))))))((......))........))))).... ( -20.80)
>DroPse_CAF1 72505 109 - 1
---UUC-----UCCAGCAGAAGAGGCCA-GGCAGCCU--UUUCGAGUGGCACAUUCGACAGACAGUGUGUAAUGAAAUUACACGCACACUUCAGCAAUUUAGCAAUUUAAACAAAUGUAU
---...-----....((.((((((((..-....))))--))))(((((......((....))..(((((((((...))))))))).)))))..))......................... ( -27.50)
>DroSec_CAF1 67614 107 - 1
AAUUUC-----GCCACCAUCACAGAUCUCAACAGUUUGCUUUGAAGUGGC--AUUCAUC------UGUGUAAUUUUAUUACACGCACACUUCAGCAAUUUAGCAAUUUAAACAAACGUAU
......-----......................(((((...(((((((((--.......------.(((((((...))))))))).)))))))((......))........))))).... ( -19.80)
>DroSim_CAF1 66940 107 - 1
AAUUUC-----GCCACCAUCACAGAUCUCAACAGUUUGCUUUGAAGUGGC--AUUCAUC------UGUGUAAUUUCAUUACACGCACACUUCAGCAAUUUAGCAAUUUAAACAAACGCAU
......-----((..........(....)....(((((...(((((((((--.......------.(((((((...))))))))).)))))))((......))........))))))).. ( -20.10)
>DroAna_CAF1 62444 106 - 1
AAUUUGUGUGGGGUAUCAUCAAAGGCCCCAGCACUU-GCA--CAAGUGGC--AUUCAAC------CGUGUAAUGAAAUUACACGCACACUUCAGCAAUUUAGCAAUUUAAACAAAUA---
.((((((.((((((..........))))))((..((-((.--.(((((((--.......------.(((((((...))))))))).)))))..))))....)).......)))))).--- ( -27.20)
>DroPer_CAF1 72704 109 - 1
---UUC-----UCCAGCAGAAGAGGCCA-GGCAGCCU--UUUCGAGUGGCACAUUCGACAGACAGUGUGUAAUGAAAUUACACGCACACUUCAGCAAUUUAGCAAUUUAAACAAAUGUAU
---...-----....((.((((((((..-....))))--))))(((((......((....))..(((((((((...))))))))).)))))..))......................... ( -27.50)
>consensus
AAUUUC_____GCCACCAUCAGAGACCUCAACAGUUUGCUUUCAAGUGGC__AUUCAAC______UGUGUAAUGAAAUUACACGCACACUUCAGCAAUUUAGCAAUUUAAACAAACGUAU
...........................................(((((((................(((((((...))))))))).)))))..((......))................. (-10.10 =  -9.87 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:13 2006