Locus 391

Sequence ID 2R_DroMel_CAF1
Location 2,368,172 – 2,368,323
Length 151
Max. P 0.668892
window769 window770

overview

Window 9

Location 2,368,172 – 2,368,284
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 81.42
Mean single sequence MFE -38.58
Consensus MFE -25.84
Energy contribution -28.32
Covariance contribution 2.48
Combinations/Pair 1.29
Mean z-score -1.65
Structure conservation index 0.67
SVM decision value 0.09
SVM RNA-class probability 0.581032
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2368172 112 + 20766785
UGGCUGUUUACCCUCAAACACUCCAGCUGAACGGCUGGAGAGCUGUUGUUGACUCUAUCUGGAGUCUGGC--------AGGUGGAUUCAGCAAGCUGGAAUCUGGCACAACUACCCAAAG
.((((((((......)))).((((((((....))))))))))))(((((.((((((....)))))).(.(--------((((...(((((....)))))))))).))))))......... ( -41.00)
>DroSec_CAF1 17616 112 + 1
UGGCUGUUUACCCUCAAACACUCCAGCUGAACGGCUGGAGAGUCGUUGUUGACUCUAUCUGGAGUCUGGC--------AGCCGGAUUUAGCAAGCUGGAAUCUGGCCCAACUACCCAAAG
.((((((((......)))).((((((((....))))))))))))((((..((((((....))))))....--------.(((((((((((....)).))))))))).))))......... ( -42.40)
>DroSim_CAF1 17764 112 + 1
UGGCUGUUUACCCUCAAACACUCGAGCUGAACGGCUGGAGAGCCGUUGUUGACUCUAUCUGGAGUCUGGC--------AGCCGGAUUCAGCAAUCUGGAAUCUGGCCCAACUACCCAAAG
.((((((((......)))).(((.((((....)))).)))))))((((..((((((....))))))....--------.(((((((((((....)).))))))))).))))......... ( -41.00)
>DroEre_CAF1 17134 96 + 1
CGUCUGUUUACCAGCAAACACUCCGGCUGAAUGGCUG-CGAGCCGUUGUUGACUCUAUCUGGAGUCUGGC----------------------CGCUGGAAUCUGGCC-AGCUACCCAAAG
.((.(((......))).)).....((((.((((((..-...))))))...((((((....)))))).)))----------------------)(((((.......))-)))......... ( -31.10)
>DroYak_CAF1 16986 120 + 1
GGUCUGCUUACCCUCAAACACUCCAGUCGAAUGGCUGGAGAGCCGUUGUUGACUCUAUCUGGAGUCUGGGAGUCUGGCAUCGGGAUUCUGCAAGCUGGAAUUUGGCUUAACUCUGCAAAG
....(((...(((.......((((((((....)))))))).((((((.(.((((((....)))))).).))...))))...))).......((((..(...)..))))......)))... ( -37.40)
>consensus
UGGCUGUUUACCCUCAAACACUCCAGCUGAACGGCUGGAGAGCCGUUGUUGACUCUAUCUGGAGUCUGGC________AGCCGGAUUCAGCAAGCUGGAAUCUGGCCCAACUACCCAAAG
.((((((((......)))).((((((((....))))))))))))((((..((((((....)))))).............(((((((((.........))))))))).))))......... (-25.84 = -28.32 +   2.48)

alignment

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secondary structure

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dotplot

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Window 0

Location 2,368,212 – 2,368,323
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 81.29
Mean single sequence MFE -38.82
Consensus MFE -20.12
Energy contribution -23.48
Covariance contribution 3.36
Combinations/Pair 1.27
Mean z-score -2.14
Structure conservation index 0.52
SVM decision value 0.29
SVM RNA-class probability 0.668892
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2368212 111 + 20766785
AGCUGUUGUUGACUCUAUCUGGAGUCUGGC--------AGGUGGAUUCAGCAAGCUGGAAUCUGGCACAACUACCCAAAGGA-GCUCGAAUAGGUGUUUGAGCGUUGAUUUAACGCCAUU
((((..((((((.((((((((........)--------))))))).))))))))))......((((.......((....)).-((((((((....))))))))...........)))).. ( -36.80)
>DroSec_CAF1 17656 111 + 1
AGUCGUUGUUGACUCUAUCUGGAGUCUGGC--------AGCCGGAUUUAGCAAGCUGGAAUCUGGCCCAACUACCCAAAGGA-GCUCGAAUAGGUGUUUGAGCGUUGAUUUAACGCCAUU
..........((((((....))))))((((--------.(((((((((((....)).))))))))).((((..((....)).-((((((((....)))))))))))).......)))).. ( -40.20)
>DroSim_CAF1 17804 111 + 1
AGCCGUUGUUGACUCUAUCUGGAGUCUGGC--------AGCCGGAUUCAGCAAUCUGGAAUCUGGCCCAACUACCCAAAGGA-GCUCGAAUAGGUGUUUGAGCGUUGAUUUAACGCCAUU
..........((((((....))))))((((--------.(((((((((((....)).))))))))).((((..((....)).-((((((((....)))))))))))).......)))).. ( -40.50)
>DroEre_CAF1 17173 97 + 1
AGCCGUUGUUGACUCUAUCUGGAGUCUGGC----------------------CGCUGGAAUCUGGCC-AGCUACCCAAAGGAAGCUGGCCAAGGUGUUUGGGCGUUUAUUUAACGCCGUU
.(((((.(((((((((....)))))).)))----------------------.)).......(((((-((((.((....)).))))))))).))).....((((((.....))))))... ( -42.10)
>DroYak_CAF1 17026 120 + 1
AGCCGUUGUUGACUCUAUCUGGAGUCUGGGAGUCUGGCAUCGGGAUUCUGCAAGCUGGAAUUUGGCUUAACUCUGCAAAGGAACCUCACCACGGUGUUUGAGCGUUGAUUUGACGCCAUU
.(((((.((.((((((....))))))..(((((..(((....(((((((.......))))))).)))..))))).............)).)))))...((.(((((.....))))))).. ( -34.50)
>consensus
AGCCGUUGUUGACUCUAUCUGGAGUCUGGC________AGCCGGAUUCAGCAAGCUGGAAUCUGGCCCAACUACCCAAAGGA_GCUCGAAUAGGUGUUUGAGCGUUGAUUUAACGCCAUU
..........((((((....))))))((((.........(((((((((.........))))))))).((((..((....))..((((((((....)))))))))))).......)))).. (-20.12 = -23.48 +   3.36)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:22 2006