Locus 1978

Sequence ID 3L_DroMel_CAF1
Location 5,452,167 – 5,452,284
Length 117
Max. P 0.648943
window3100

overview

Window 0

Location 5,452,167 – 5,452,284
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 93.76
Mean single sequence MFE -45.58
Consensus MFE -38.58
Energy contribution -38.34
Covariance contribution -0.24
Combinations/Pair 1.17
Mean z-score -1.34
Structure conservation index 0.85
SVM decision value 0.24
SVM RNA-class probability 0.648943
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5452167 117 - 23771897
AGUUACAGCUGAGCACCUGCUCGCCUUUCUGUCCGCCUGGCUGCUCCUCAAAGGAAUGGCGGCGGAGAAGCGGGUGAAAGCGAGGGAAAACGUGUCCUCCACGCAGCAAAGCUGCUC
.......(((...((((((((........(.((((((..(((..(((.....)))..))))))))).)))))))))..)))(((((........)))))...(((((...))))).. ( -48.00)
>DroSec_CAF1 13667 117 - 1
AGUUACAGCUGAGCACCUGCUCGCCUUUCUGUCCGCCUGGCUGCUUUUCAAAGGAAUGGCGGCGGAGAAGCGGGUGAAUGCGUGGGAAAACGUGUCCUCCACGCAGCAAAGCUGCUC
.....(((((..((....((((((.((((((.(((((...((..........))...))))))))))).))))))...((((((((...........))))))))))..)))))... ( -49.00)
>DroSim_CAF1 13789 117 - 1
AGUUACAGCUGAGCACCUGCUCGCCUUUCUGUCCGCCUGGCUGCUCUUCAAAGGAAUGGCGGCGGAGAAGCGGGUGAAUGCGAGGGAAAACGUGUCCUCCACGCAGCAAAGCUGCUC
.....(((((..((....((((((.((((((.(((((...((..........))...))))))))))).))))))...((((.((((.......))))...))))))..)))))... ( -44.80)
>DroEre_CAF1 13346 117 - 1
AGUUACAGCUGAGCACCUGCUCGCCUUUCUGUUCGCCUGGCUGCUCCUCAAAGGAAAGGCGGCGGAGGAGCGGGUGAGAGCGAGGGAAAACGUGUCCUCCACGCAGCAAAGCUGCUC
.......(((...(((((((((....((((((.(((((......(((.....))).))))))))))))))))))))..)))(((((........)))))...(((((...))))).. ( -47.00)
>DroYak_CAF1 515 116 - 1
AGUUACAGCUGAGCACCUGCACGCCUUUCUGUCCGCCUGGUUGCCCCUCAAAGGAAAAGCGCCGGAAAAGCGGGUGAAAG-GGGGGAAAACGUGUCCUCCACGCAGCAAAGCUGCCC
.....(((((..((...(((....(((((...(((((((((.((.((.....))....)))))))....))))..)))))-((((((.......))))))..)))))..)))))... ( -39.10)
>consensus
AGUUACAGCUGAGCACCUGCUCGCCUUUCUGUCCGCCUGGCUGCUCCUCAAAGGAAUGGCGGCGGAGAAGCGGGUGAAAGCGAGGGAAAACGUGUCCUCCACGCAGCAAAGCUGCUC
.....(((((..((.(((((((((((.(.(.((((((..(((..(((.....)))..))))))))).).).))))))..))).)).....((((.....))))..))..)))))... (-38.58 = -38.34 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:39 2006