Locus 4906

Sequence ID 3R_DroMel_CAF1
Location 12,887,494 – 12,887,595
Length 101
Max. P 0.625881
window8030

overview

Window 0

Location 12,887,494 – 12,887,595
Length 101
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 78.56
Mean single sequence MFE -37.72
Consensus MFE -23.04
Energy contribution -23.54
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.61
SVM decision value 0.19
SVM RNA-class probability 0.625881
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12887494 101 + 27905053
AACCAGCGUGCCUGUGCAACGG-----GCCUGUGCACUGGCAACUGGAU-GAAGGCAACGGGCAGCGGG--------CAACAGGGAAC-UGGCAAUCGGCAACAGGCAACAGACCG
........(((((((((..(((-----((((((((.(((....((....-..))....)))))).))))--------)..(((....)-))....))))).)))))))........ ( -35.60)
>DroSec_CAF1 5264 109 + 1
AACCAGUGUGCCUGUGCAACGG-----GCCUGUGAACUGGCAACUGGAU-GAAGGCAACGGGCAGCGGGCAGCAGGGCAACAGGGAAC-UGGCAAUCGGCAACAGGCAACAGGCCG
..(((((.(.(((((((.....-----((((((...(((....((....-..))....)))...))))))......)).))))).)))-)))....((((....(....)..)))) ( -39.50)
>DroSim_CAF1 4336 94 + 1
AACCAGCGUGCCUGUGCAACGG-----GCCUGUGCACUGGCAACUGGAU-GAAGGCAGCGGGCAG---------------CAGGGAAC-UGGCAAUCGGCAACAGGCAACAGGCCG
......((.((((((((.....-----(((..(((.(((.(..(((...-.....)))..).)))---------------(((....)-)))))...))).....)).)))))))) ( -35.90)
>DroEre_CAF1 3685 88 + 1
UGCCAGUGUGCCUGUGCAACGG-----GCCUGUGCACUGGCAACUGGAA-AAAGGCAGCAGGGAACUGG--------CAACAGGGAAAUCGGC--------------AACAGGCCG
((((((((((((((.....)))-----))....))))))))).......-...(((.........(((.--------...))).......(..--------------..)..))). ( -34.80)
>DroYak_CAF1 5284 108 + 1
UACCAGUGUGCCUGUGCAACGGCAACGGGCUGUGCACUGGCAUCUGGAAAAAAGGCAACAGGGAACUGG--------CAACAGGGAAAUCGGCAAUCGGCAACAGGCAACAGGCCG
..((((.(((((.(((((.((((.....))))))))).)))))))))......(....)......(((.--------...)))......((((....(....).(....)..)))) ( -42.80)
>consensus
AACCAGUGUGCCUGUGCAACGG_____GCCUGUGCACUGGCAACUGGAU_GAAGGCAACGGGCAGCGGG________CAACAGGGAAC_UGGCAAUCGGCAACAGGCAACAGGCCG
..((((..((((.(((((.(((.......)))))))).)))).))))...........................................(((.....((.....)).....))). (-23.04 = -23.54 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:43 2006