Locus 3252

Sequence ID 3R_DroMel_CAF1
Location 8,682,979 – 8,683,086
Length 107
Max. P 0.525393
window5258

overview

Window 8

Location 8,682,979 – 8,683,086
Length 107
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 78.19
Mean single sequence MFE -27.09
Consensus MFE -16.15
Energy contribution -18.70
Covariance contribution 2.55
Combinations/Pair 1.23
Mean z-score -1.46
Structure conservation index 0.60
SVM decision value -0.02
SVM RNA-class probability 0.525393
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8682979 107 + 27905053
UUUCGUCACACUUUUAAAGAGACUUGCCUUCAAUUAAGUGAAAUUCGUCACUAGGCAAGGGGAGUUAAUAAUCAGCUGGAGAGGUGUAACGAAAGUGGGGUGGAUUU
((((((.((((((((..((...(((((((.......(((((......))))))))))))..((........))..))..)))))))).))))))............. ( -30.01)
>DroSec_CAF1 109824 107 + 1
AUUCGUCACACUUUUAAAGCGACUUGCCUUCAAUUAAGUGAAAUUCGUCACUAGGCAACGGGAGUAAAUAAUCAGCUGGAGAGGUGUAACGAAAGUGGGGUGGAUUU
.(((((.((((((((..(((....(((((.......(((((......))))))))))((....)).........)))..)))))))).))))).............. ( -30.31)
>DroSim_CAF1 126459 107 + 1
UUUUGUCACACUUUUAAAGCGACUUGCCUUCAAUUAAGUGAAAUUCGUCACUAGGCAGGGGGAGUAAAUAAUCAGCUGGAGAGGUGUAACGAAAGUGGGGUGGAUUU
.((..((((((((((..(((..(((((((.......(((((......))))))))))))..((........)).)))..)))))))).((....))..))..))... ( -31.81)
>DroEre_CAF1 123933 107 + 1
UUUCGUCACACUUUUAAAGCGGCUUACCUUCAAUUAAGUGAAUUUCGUCACUCGGCAAGGGAAGUAAAUAAUCAGCUGAAGAGGGGUAACGAAAGUGGGGUAGAUUU
((((((.((.(((((..(((.((((.((((...(..(((((......)))))..).)))).)))).........)))..))))).)).))))))............. ( -24.40)
>DroYak_CAF1 116374 107 + 1
UUUCGUCACACUUUUAAAGCGACUUGCCUUCAAUUAAGUGAAUUUCGUCACUAGGCAAGGGGAGUAUAUAAUCAGCUGAAGAGGUGUAACGAAAGUGGUGCAGAUUU
((((((.((((((((..(((..(((((((.......(((((......))))))))))))..((........)).)))..)))))))).))))))............. ( -33.01)
>DroAna_CAF1 103245 81 + 1
UUUCACCACAAGCUUUAAUCA-GAUGCUUUCAAUUUAGUAGAUUUCGGCAU--GGAAGGAGGA----------------ACAGG------GAGCAUGGAAAAGG-UU
..........((((((..((.-.(((((..(..(((......((((.....--.))))...))----------------)..).------.))))).)).))))-)) ( -13.00)
>consensus
UUUCGUCACACUUUUAAAGCGACUUGCCUUCAAUUAAGUGAAAUUCGUCACUAGGCAAGGGGAGUAAAUAAUCAGCUGGAGAGGUGUAACGAAAGUGGGGUAGAUUU
.(((((.((((((((..(((.((((.(((((.....(((((......)))))..).)))).)))).........)))..)))))))).))))).............. (-16.15 = -18.70 +   2.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:45 2006