Locus 4845

Sequence ID 3R_DroMel_CAF1
Location 12,695,063 – 12,695,173
Length 110
Max. P 0.782021
window7936

overview

Window 6

Location 12,695,063 – 12,695,173
Length 110
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 73.11
Mean single sequence MFE -36.02
Consensus MFE -18.99
Energy contribution -19.38
Covariance contribution 0.39
Combinations/Pair 1.25
Mean z-score -1.71
Structure conservation index 0.53
SVM decision value 0.56
SVM RNA-class probability 0.782021
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12695063 110 - 27905053
GAAACCCAAGCGUUGUAAGUGUGCGUA-AUGCGUUUCCAACAGCGAGCGUCCUCUGGUGGGUUGUCAGCAAAGCAUAAGCUGCAAAAGAAAAACAAUAGGGGGCGCCAGCG
(((((.((.((((.........)))).-.)).))))).....((..((((((((((.((..(((.((((.........)))))))........)).))))))))))..)). ( -33.30)
>DroSec_CAF1 70969 110 - 1
AAAUCCCAAGCGUUGUAAGUGUGCGUA-AUGCCUUUCAAACAGCGAGCGUCCUCUGGUGGGGUGACUGCAAAGCUUGAGCUGCGAAAGAAAUUCAGUAGGGGGCGCCAGCA
.........(((((((...((.((...-..))....)).)))))(.((((((((((.((((....))(((..((....)))))..........)).))))))))))).)). ( -33.90)
>DroSim_CAF1 72048 110 - 1
AAAUCCCAAGCGUUGUAAGUGUGCGUA-AUGCGUUUCAAACAGCGAGCGUCCUCUGGUGGGGUUACCGCAAAGCUUGAGCUGCGAAAGAAAAUCAAUAGGGGGCGCCAGCG
.........(((((((...((.(((..-...)))..)).)))))(.((((((((((((((.....)))).....((((....(....)....))))))))))))))).)). ( -38.00)
>DroEre_CAF1 75706 110 - 1
AAAAACGAAAUGUUUUAUGUGUGCGUA-AUGCGUUUCGAACGGCGGGCGACCUCUGGUGAGAAAGCAGCAAAGCUAGAGCUGCGACAGAAAAACAAUAGGGGGCGCCAGCG
.....((((((((.(((((....))))-).))))))))....((.((((.(((((.((......(((((.........))))).........))....))))))))).)). ( -39.36)
>DroYak_CAF1 64673 110 - 1
AAAAAAUAAAUCUUGUAUGUGUGCGUA-AUGCGUUUUAAUCAGCGGGCGACCUCUGGUGGAAAAGCAGCUAAGCUGGAGCUGCGAAAGAAGAACAAUAGGGGGCGCUAGCG
..(((((..((..((((....))))..-))..))))).....((.((((.((((((.((.....((((((.......))))))..........)).)))))).)))).)). ( -29.36)
>DroMoj_CAF1 83879 111 - 1
ACACCUUCUGCUCUGCAUGUGUGCGUGCAUGGGGCACACCUACCAAACGCUCUCUGUCGGCAAGUGUGCGAAGCUGUAUGUGCGCACACAUUUCAGUAGAUGGCGACUGCC
.(.((.((((((....(((((((((..((((.(((............(((.....).))(((....)))...))).))))..)))))))))...)))))).)).)...... ( -42.20)
>consensus
AAAACCCAAGCGUUGUAAGUGUGCGUA_AUGCGUUUCAAACAGCGAGCGUCCUCUGGUGGGAAGACAGCAAAGCUUGAGCUGCGAAAGAAAAACAAUAGGGGGCGCCAGCG
......................((.....(((..........))).((((((((((.((............(((....)))............)).))))))))))..)). (-18.99 = -19.38 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:13 2006