Locus 1833

Sequence ID 3R_DroMel_CAF1
Location 5,242,125 – 5,242,224
Length 99
Max. P 0.932738
window3015

overview

Window 5

Location 5,242,125 – 5,242,224
Length 99
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 78.92
Mean single sequence MFE -38.33
Consensus MFE -27.54
Energy contribution -28.27
Covariance contribution 0.73
Combinations/Pair 1.17
Mean z-score -1.99
Structure conservation index 0.72
SVM decision value 1.22
SVM RNA-class probability 0.932738
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5242125 99 - 27905053
CUA------------------AGCUCACCUUCUGUGUAUGCUCCUCUGGAGUGCCGCAUUGCAUCAGAUUGGUGCGGUGCAGAACGUAGCCUACUCGCUGGGUUUUGGCCGAGCUCU
...------------------(((((.............(((((...)))))(((((((((((((.....))))))))))(((((.((((......)))).)))))))).))))).. ( -40.80)
>DroPse_CAF1 14922 117 - 1
GAAGUAAUUGAAGAUAAAGGUAUUUUACCUUCUCCGUCUGUUGCUCUUCACCGCCGCACUGCAUUAGAUUCGUGCGAUGCAGCACGAAGCCUACGCGCUGCGUCUUGGCCGUGUUCU
..((((((.((.....((((((...)))))).....)).))))))...(((.(((((((............))))((((((((.((.......)).))))))))..))).))).... ( -38.40)
>DroSec_CAF1 15980 110 - 1
CGAAGAAUCUUUA-------GAGCUCACCUUCUGUGCGUUCUCCUCUGGAGUGCCGCAUUGCAUCAGAUUGGUGCGGUGCAGAACGUAGCCUACUCGCUGGGUUUUGGCCGAACUCU
............(-------((((.(((.....))).))))).....((((((((((((((((((.....))))))))))(((((.((((......)))).))))))))...))))) ( -39.40)
>DroSim_CAF1 16044 110 - 1
CAAAGAAUCUUUA-------GAGCUCACCUUCUGUGCGUUCUCCUCUGGAGUGCCGCAUUGCAUCAGAUUGGUGCGGUGCAGAACGUAGCCUACUCGCUGGGUUUUGGCCGAGCUCU
............(-------((((((........((((((((.....((....))((((((((((.....))))))))))))))))))(((.(((.....)))...))).))))))) ( -43.10)
>DroEre_CAF1 18237 109 - 1
CUAAUAU-CUAAA-------CAGCUUACCUUCUGUGCGUGCUCCUCUGUAUUGCCGCAUUGCAUCAGAUUGGUGCGGUGUAGAACAUAGCCUACUCUCUGGGUUUUGGCGGAGCUCU
.......-....(-------(((........))))..(.(((((..(((....(..(((((((((.....)))))))))..).)))..(((.(((.....)))...)))))))).). ( -32.20)
>DroYak_CAF1 15969 110 - 1
CCAUUACUCAAAG-------AAGCUCACCUUUUGUGCGUGCUCCUCUGUAUUGCCGCAUUGCAUCAGAUUGGUGCGGUGUAGAACGUAGCCUACUCGCUGGGUUUUGGCGGAGCUCU
...........((-------(.((((...........((((......))))((((((((((((((.....))))))))))(((((.((((......)))).)))))))))))))))) ( -36.10)
>consensus
CAAAUAAUCUAAA_______GAGCUCACCUUCUGUGCGUGCUCCUCUGGAGUGCCGCAUUGCAUCAGAUUGGUGCGGUGCAGAACGUAGCCUACUCGCUGGGUUUUGGCCGAGCUCU
.....................(((((............(((......)))..(((((((((((((.....))))))))))(((((.((((......)))).)))))))).))))).. (-27.54 = -28.27 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:37 2006