Locus 1409

Sequence ID 3R_DroMel_CAF1
Location 4,096,509 – 4,096,628
Length 119
Max. P 0.997567
window2334

overview

Window 4

Location 4,096,509 – 4,096,628
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.45
Mean single sequence MFE -22.27
Consensus MFE -20.65
Energy contribution -20.25
Covariance contribution -0.40
Combinations/Pair 1.08
Mean z-score -1.96
Structure conservation index 0.93
SVM decision value 2.88
SVM RNA-class probability 0.997567
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4096509 119 + 27905053
AGAUCGCAUUGGCAUUGAUCUAUUUUCCUCAUAAAUAUGUAUUAAAUUAGAGGAUU-CCCUUUCAUAUUUAAUUUCUUUUGUGCCCAAAGGAAUAAUCAAUUCAAGCCCGCCUUCAAAAC
.((..((...(((.((((......(((((((((((.....(((((((.(((((...-.)))))...)))))))....)))))).....)))))........))))))).))..))..... ( -24.04)
>DroSec_CAF1 8475 118 + 1
AGAUCGCAUUGGCAUUGAUCUAUUUUCCUCAUAAAUAUGUAUUAAAUUAGAGGAUU-C-CUUUCAUAUUUAAUUUCUUUUGUACCCAAAGGAAUAAUCAAUUCAAGCCCGCCUUCAAAAC
.((..((...(((.((((.............((((((((.........(((((...-)-))))))))))))..((((((((....))))))))........))))))).))..))..... ( -21.20)
>DroSim_CAF1 8506 118 + 1
AGAUCGUAUUGGCAUUGAUCUAUUUUCCUCAUAAAUAUGUAUUAAAUUAGAGGAUU-C-CUUUCAUAUUUAAUUUCUUUUGUACCCAAAGGAAUAAUCAAUUCAAGCCCGCCUUCAAAAC
.((..((...(((.((((.............((((((((.........(((((...-)-))))))))))))..((((((((....))))))))........))))))).))..))..... ( -19.60)
>DroEre_CAF1 8503 119 + 1
AGAUCGCAUUGGCAUUGAUCUAUUUUCCUCAUAAAUAUGUAUUAAAUUAGGGGAAAGG-AAUUCAUAUUUAAUUUCUUUUGUACGCAAAGGAAUAAUCAAUUCAAGCCCGCCUUCAAAUC
.((..((...(((..(((....((((((((...................)))))))).-...)))........((((((((....))))))))............))).))..))..... ( -23.61)
>DroYak_CAF1 8446 118 + 1
AGAUCGCAUUGGCAUUGAUCUAUUUUCCUCAUAAAUAUGUAUUAAAUUAGGGGAUU-C-CUUUCAUAUUUAAUUUCUUUUGUACGCAAAGGAAUAAUCAAUUCAAGCCCGCCUUCAAAUC
.((..((...(((.((((.............((((((((.........((((....-)-))).))))))))..((((((((....))))))))........))))))).))..))..... ( -22.90)
>consensus
AGAUCGCAUUGGCAUUGAUCUAUUUUCCUCAUAAAUAUGUAUUAAAUUAGAGGAUU_C_CUUUCAUAUUUAAUUUCUUUUGUACCCAAAGGAAUAAUCAAUUCAAGCCCGCCUUCAAAAC
.((..((...(((.((((.......(((((...................)))))...................((((((((....))))))))........))))))).))..))..... (-20.65 = -20.25 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:35 2006