Locus 1300

Sequence ID 3R_DroMel_CAF1
Location 3,821,885 – 3,821,998
Length 113
Max. P 0.602306
window2131

overview

Window 1

Location 3,821,885 – 3,821,998
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.46
Mean single sequence MFE -42.22
Consensus MFE -31.54
Energy contribution -32.50
Covariance contribution 0.96
Combinations/Pair 1.12
Mean z-score -1.65
Structure conservation index 0.75
SVM decision value 0.14
SVM RNA-class probability 0.602306
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3821885 113 - 27905053
AACUUUGAACUGUGCAAUCAUGCGCGCUGCCAAGACGCG-------GCAAAAGUACCGCUCCGAUAUUUGGAUUGGCGGCAAUUAGCGCCGCACUUGGGUGUGGGUGCAAAGGCGGGUGA
.................((((.(((((((((((...(((-------(........))))(((((...))))))))))))).....(((((((((....)))).)))))....))).)))) ( -45.80)
>DroSec_CAF1 49628 113 - 1
AACUUUGAACUGUGCAAUCAUCGGCGCUGCCAAGACGCC-------GCAAAAGUACCGCUCCGAUAUUUGGAUUGGCGGCAAUUAGCGCCGCACUUGGGUGUGGGUGCAAAGGCAGGUGA
.................(((((.((((((((((......-------((.........))(((((...))))))))))))).....(((((((((....)))).)))))....)).))))) ( -37.40)
>DroSim_CAF1 54192 113 - 1
AACUUUGAACUGUGCAAUCAUCGGCGCGGCCAAGACGCG-------GCAAAAGUACCGCACCGAUAUUUGGAUUGGCGGCAAUUAGCGCCGCACUUGGGUGUGGGUGCAAAGGCAGGUGA
.................(((((.((((.(((((...(((-------(........)))).((((...)))).))))).)).....(((((((((....)))).)))))....)).))))) ( -40.90)
>DroEre_CAF1 40944 113 - 1
AACUUUGAACUGUGCCAUCAUCCGCGCUGCCAAGACGAC-------GCAAAAGUAGCCCUCCGAUACUGGGAUGGGCGGCAAUUAGCGCCGCGCUUCGGUGUGGGUGCAAAGCCAGGUGA
.((((.(...((..((.......((((((((......((-------......)).(((((((.......))).)))))))....)))))(((((....)))))))..))...).)))).. ( -42.30)
>DroYak_CAF1 55313 120 - 1
AACUUUGAACUGUGCAAUCAUCCGCGCUGCCAAGACGACAGACAAGGUAAAAGUACCGCUCUGAUAUUUGGAUUGGCGGCAAUUAGCGCCACACUGGCCUGUGGGUGCAAAGGCAGGUGA
.................(((((.((((((((((..(((((((...((((....))))..))))....)))..)))))))).....(((((.(((......))))))))....)).))))) ( -44.70)
>consensus
AACUUUGAACUGUGCAAUCAUCCGCGCUGCCAAGACGCC_______GCAAAAGUACCGCUCCGAUAUUUGGAUUGGCGGCAAUUAGCGCCGCACUUGGGUGUGGGUGCAAAGGCAGGUGA
.................(((((.((((((((((..(((........))..(((((.(.....).))))))..)))))))).....(((((((((....)))).)))))....)).))))) (-31.54 = -32.50 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:11 2006