Locus 2277

Sequence ID X_DroMel_CAF1
Location 6,162,484 – 6,162,598
Length 114
Max. P 0.647853
window3690

overview

Window 0

Location 6,162,484 – 6,162,598
Length 114
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 86.54
Mean single sequence MFE -33.27
Consensus MFE -23.41
Energy contribution -23.89
Covariance contribution 0.48
Combinations/Pair 1.19
Mean z-score -1.86
Structure conservation index 0.70
SVM decision value 0.24
SVM RNA-class probability 0.647853
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6162484 114 + 22224390
CCCUCUUCCGUU-AAUUUCCCGAGAAGCUUUCGAAGCGAAUUGAAGCGAGAGAGUGAGUGAGAGAGGAAGUGGGGUAGAGUGGUGCAAAGAAAUAGCGGAAAAGCGAAGACGGCG
(((.(((((...-..((((.(.....((((((...((........))..))))))..).))))..))))).))).....((.((....(....).((......))....)).)). ( -28.80)
>DroSec_CAF1 1147 112 + 1
CCCUCUUCCGUU-CACUUCCCGAGAAGCUUUCGAAGCGAAUUGAAGCGAGAGCGUGAGUGAGAGAGGGAGUGGGGGAGAGUGGUGCAAAGAAAUAG--AAAAAGCGAAGACGGCG
(((((((((..(-((((.(((......(((((...((........))....((....))))))).))))))))))))))).)).............--.....((.......)). ( -32.40)
>DroSim_CAF1 3477 114 + 1
CCCUCUUCCGUU-CACUUCCCGAGAAGCUUUCGAAGCGAAUUGAAGCGCGAGAGUGAGUGAGAGAGGAAGUGGGGGAGAGUGGUGAAAAGAAAUAGCGGAAAAGCGAAGACGGCG
(((((((((..(-((((((((.....(((((((..((........)).)))))))........).))))))))))))))).))............((......)).......... ( -35.72)
>DroEre_CAF1 1169 114 + 1
CUCUCUCCCCAU-CACAUUCAGAGAAGCUUUCGAAGCGAAUUGAAGCGAGAGAGUAAGUGAAAGAGGGAGUGGGGGAGACUGGUGCAAAGAAACAGCGGAAAAGCGAAGACGGCG
.((((.((((((-..(.((((.....((((((...((........))..))))))...))))....)..))))))))))(((.((........)).)))....((.......)). ( -31.50)
>DroYak_CAF1 6977 105 + 1
CCCUCUUCCCAUCCACUUUCAGAGAAGCUUUCGAA----------ACGAGAGAGUAUGUGAGAGAGGGAGUGGGGGAGAGUGGUGCUAAGAAACAGCGGAAAAGCGAAGACGGCG
((((((((((.(((.((((((.(....((((((..----------.))))))....).))))))..)))...)))))))).)).(((........((......))......))). ( -37.94)
>consensus
CCCUCUUCCGUU_CACUUCCCGAGAAGCUUUCGAAGCGAAUUGAAGCGAGAGAGUGAGUGAGAGAGGGAGUGGGGGAGAGUGGUGCAAAGAAAUAGCGGAAAAGCGAAGACGGCG
(((((((((....(((((((......((((((...((........))..))))))..........))))))).))))))).))....................((.......)). (-23.41 = -23.89 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:26 2006