Locus 8857

Sequence ID 3R_DroMel_CAF1
Location 23,764,591 – 23,764,685
Length 94
Max. P 0.521260
window14219

overview

Window 9

Location 23,764,591 – 23,764,685
Length 94
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 81.25
Mean single sequence MFE -31.15
Consensus MFE -20.15
Energy contribution -20.68
Covariance contribution 0.53
Combinations/Pair 1.30
Mean z-score -1.45
Structure conservation index 0.65
SVM decision value -0.02
SVM RNA-class probability 0.521260
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23764591 94 + 27905053
AGACCAACAAGGUCCAGCUGCGAGAGAGGCUGCGCAAGCACCUUAUGGAGUGAGUAUGCUUCUGGCG-------GGGCUUGGGUAACCUGGGGUAAUCACA
..(((....((((((((((.((..(((((((((....)))((....)).........))))))..))-------.))).)))...))))..)))....... ( -34.70)
>DroSec_CAF1 176 94 + 1
AGACCAACAAGGUCCAGCUGCGAGAGAGGCUGCGCAAGCACCUUAUGGAGUGAGUAUGCUUCUGGCG-------GGACUUGGGUAACCUGGGGUAAUCACA
..(((....((((((.(((......((((.(((....)))))))..(((((......))))).))).-------))))))((....))...)))....... ( -31.10)
>DroSim_CAF1 389 94 + 1
AGACCAACAAGGUCCAGCUGCGAGAGAGGCUGCGCAAGCACCUUAUGGAGUGAGUAUGCUUCUGGCG-------GGGCUUGGGUAACCUGGGGUAAUCACA
..(((....((((((((((.((..(((((((((....)))((....)).........))))))..))-------.))).)))...))))..)))....... ( -34.70)
>DroEre_CAF1 179 89 + 1
AGACCAACAAGGUCCAGCUGCGUGAGAGGCUGCGCAAGCACCUACUGGAGUGAGUAUGCUUUUGGCG-------GGGCCUUGGUAAC-----GUAAUCACA
.((((.....))))....(((((..((((((.((((((((..((((......)))))))))...)))-------.))))))....))-----)))...... ( -32.00)
>DroYak_CAF1 389 89 + 1
AGACCAACAAGGUCCAGCUGCGGGAGAGGCUGCGCAAGCACCUCCUGGAGUGAGUAUGCUUCUGGCG-------GGCCCUUGGUAAC-----GUAAUCACA
..(((((...(((((.(((.((((((..(((.....)))..)))))).)))......((.....)))-------)))).)))))...-----......... ( -34.70)
>DroPer_CAF1 1168 98 + 1
ACACAAACAAGGUCCAAUUGCGGGAAAGACUGCGCAAGCAUUUGCUUGAGUAAGUAU---UUUGGAACACCAUCAGGCCUGAAAAAGCUAAAUUAAACGCU
..........(((((((..((((......)))).(((((....))))).........---.)))))...))....(((.(....).)))............ ( -19.70)
>consensus
AGACCAACAAGGUCCAGCUGCGAGAGAGGCUGCGCAAGCACCUUAUGGAGUGAGUAUGCUUCUGGCG_______GGGCCUGGGUAACCUGGGGUAAUCACA
..(((....((((((.(((.((...((((.(((....))))))).)).)))......((.....))........)))))).)))................. (-20.15 = -20.68 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:24 2006