Locus 3208

Sequence ID X_DroMel_CAF1
Location 8,488,694 – 8,488,796
Length 102
Max. P 0.924128
window5262

overview

Window 2

Location 8,488,694 – 8,488,796
Length 102
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 79.94
Mean single sequence MFE -40.88
Consensus MFE -25.29
Energy contribution -25.57
Covariance contribution 0.28
Combinations/Pair 1.17
Mean z-score -2.22
Structure conservation index 0.62
SVM decision value 1.16
SVM RNA-class probability 0.924128
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8488694 102 - 22224390
AAACCGCAAGAUAAGCCCGAAUGCGACUUCGUAUCGGUGUUCGGGUUUUGGGAUUCGGGAUCU--CGCUACUCGGGAU------CUCGAAAUCUCGGGAUUCGGG-UCCCC
....(....)..((((((((((((((.......)).)))))))))))).((((((((((((((--((.....))))))------)))).))))))(((((....)-)))). ( -43.50)
>DroSec_CAF1 30959 94 - 1
AAACCGCAAGAUAAGCCCGAAUGCGACUUCGUAUCGGUGUUCGGGUCUUGGGAUUCGGGAUCU--CGG-------GA-------CUCGGGAUCUCGGGAUUCGGG-UCCCC
...((.((((((.(((((((.((((....)))))))).)))...))))))))....(((((((--((.-------..-------..)))))))))(((((....)-)))). ( -40.30)
>DroSim_CAF1 40115 94 - 1
AAACCGCAAGAUAAGCCCGAAUGCGACUUCGUAUCGGUGCUCGGGUCUUGGGAUUCGGGAUCU--CGG-------GAU------CUCGGGA-CUCGGGAUUCGGG-UCCCC
...((.((((((.(((((((.((((....)))))))).)))...))))))))....((((((.--...-------)))------)))((((-((((.....))))-)))). ( -44.70)
>DroEre_CAF1 37058 105 - 1
AAACCGCAAGAUAAGCCCGAAUGCGACUUCGUAUCGGUGUUCGGGUUUUGGGAUUCGGGCUUCGGCGGGACUCGGGAUC------UCGGGAUCUCGGGACUCGGAACCCUG
....(....)...(((((((.((((....)))))))).))).((((((((((..((..((....))..))(((((((((------....))))))))).)))))))))).. ( -44.00)
>DroYak_CAF1 38247 101 - 1
AAACCGCUAGAUAAGCCCGACUGCGACUUCGUAUCGGUGUUCGGGUUUUCGGUUUU---------UGGGAUUCGGGAUCUUGGACUCGGAAUCUUGGGAUUCGGG-UGCUC
.............(((((((.((((....)))))))).))).((((.((((..(((---------..((((((.(..((...))..).))))))..)))..))))-.)))) ( -31.90)
>consensus
AAACCGCAAGAUAAGCCCGAAUGCGACUUCGUAUCGGUGUUCGGGUUUUGGGAUUCGGGAUCU__CGG_A_UCGGGAU______CUCGGGAUCUCGGGAUUCGGG_UCCCC
...((........(((((((.((((....)))))))).))).((((((((((((((.((..........................)).))))))))))))))))....... (-25.29 = -25.57 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:48 2006