Locus 699

Sequence ID X_DroMel_CAF1
Location 1,924,924 – 1,925,044
Length 120
Max. P 0.999269
window1123

overview

Window 3

Location 1,924,924 – 1,925,044
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.25
Mean single sequence MFE -38.34
Consensus MFE -35.90
Energy contribution -35.14
Covariance contribution -0.76
Combinations/Pair 1.17
Mean z-score -2.11
Structure conservation index 0.94
SVM decision value 3.47
SVM RNA-class probability 0.999269
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1924924 120 + 22224390
CCGCUUCGAGCGGAAACUCAACUUCUGCUGGAAGAUCUACAGCUAAGAGAUCAUCAAAUAGGCGUUCAGAUAGAAAAGCUCGAGGAAAUCUCCAAGGGCGAGACCACGCAGAGGCUGGCC
((((.....))))....(((.((((((((((..(((((.(......)))))).((.........(((.....)))..((((..(((....)))..))))))..))).))))))).))).. ( -36.20)
>DroSec_CAF1 8894 120 + 1
CCACUUCGAGCGGAAACUCAACUUCUGCUGGACGAUCUACAGCUAAGAGAUCAUCAAAUAGGCGUUCAGAUAGGAAAGCUCGAGGAAAUAUCGAAGGGCGAGACCACGCAGCGGCUGGCC
...(((((((((....).....((((((((((((((((.(......)))))).((.....)).)))))).)))))..))))))))...........(((.((.((.......)))).))) ( -37.90)
>DroSim_CAF1 8520 120 + 1
CCACUUCGAGCGGAAACUCAACUUCUGCUGGACGAUCUACAGCUAAGAGAUCAUCAAAUAGGCGUUCAGAUAGGAAAGCUCGAGGAAAUAUCGAAGGGCGAGACCACGCAGAGGCUGGCC
...(((((((((....).....((((((((((((((((.(......)))))).((.....)).)))))).)))))..))))))))...........(((.((.((.......)))).))) ( -37.90)
>DroEre_CAF1 8958 120 + 1
CCGCCUCGAGCGGAAACUCAACUUCUGUUGGAUGAUCUUCAGCUACGAGAUCAUCAAAUAGGCAUUCAAAUAGAAAAGCUCGAGGAAAUCUCCAAGGGCGAGACCACGCAGAGGCUGGCC
(((((((..(((....(((....((((((.(((((((((.......))))))))).))))))...............((((..(((....)))..)))))))....))).))))).)).. ( -43.30)
>DroYak_CAF1 8995 120 + 1
CCGCCUCGAGCGGAAACUCAACUGCUAUUGAACGAUCUUCAGUUAAGAGAUCAUCAAAUAGGCAUUCAAAUAGAAAAGCUCGAGGAAAUCUCCACGGGCGAGACCACACAGAGGCUGGCC
(((((((..(.((...(((...((((.((((..((((((.......)))))).))))...)))).............(((((.(((....))).)))))))).)).)...))))).)).. ( -36.40)
>consensus
CCGCUUCGAGCGGAAACUCAACUUCUGCUGGACGAUCUACAGCUAAGAGAUCAUCAAAUAGGCGUUCAGAUAGAAAAGCUCGAGGAAAUCUCCAAGGGCGAGACCACGCAGAGGCUGGCC
...(((((((((....).....((((((((((((((((.(......)))))).((.....)).)))))).)))))..))))))))...........(((.((.((.......)))).))) (-35.90 = -35.14 +  -0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:29 2006