Locus 526

Sequence ID 3R_DroMel_CAF1
Location 1,936,137 – 1,936,246
Length 109
Max. P 0.948193
window839 window840

overview

Window 9

Location 1,936,137 – 1,936,246
Length 109
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 71.80
Mean single sequence MFE -30.58
Consensus MFE -16.78
Energy contribution -18.31
Covariance contribution 1.53
Combinations/Pair 1.07
Mean z-score -1.91
Structure conservation index 0.55
SVM decision value 1.38
SVM RNA-class probability 0.948193
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1936137 109 + 27905053
CGCAGGCACUUUUCCAGAGUCUGGGCAUCACCAGAAAGGUCAGCUAGUGCCUGGAAAGUAC-AAGUUACAUUGAUUUGUUGGUUCCAACGCAAAAUGAGCUUUAAGCAAU
.(((((((((...((....(((((......)))))..))......)))))))((((...((-(((((.....)))))))...))))...)).......((.....))... ( -34.40)
>DroVir_CAF1 113366 86 + 1
CUCAGGCACUUCUCCAAAAUCUGCGCAUCGCCCGUGAGAUCGGCUACGGUCUGCAAAAUGUUGGGUUGCUUUUCUUUUUUUUUUUC------------------------
...(((((...(.((((....((((.((((.(((......)))...)))).)))).....))))).)))))...............------------------------ ( -17.60)
>DroSec_CAF1 94377 104 + 1
CGCAGGCACUUUUCCAGAGUCUGGGCAUCACCAGAAAGGUCAGCUAGUGCCUGCAAAGCAC-AGGUCACUUUAAUUUGUUGGUUUCA-----AAGUGAGCUUUAACAAAU
.(((((((((...((....(((((......)))))..))......)))))))))(((((..-...(((((((((((....))))..)-----)))))))))))....... ( -35.20)
>DroSim_CAF1 95755 104 + 1
CGCAGGCACUUUUCCAGAGUCUGGGCAUCACCAGAAAGGUCAGCUAGUGCCUGCAAAGCAC-AGGUCACUUUAAUUUGUUGGUUUCA-----AAGUGAGCUUUAACAAAU
.(((((((((...((....(((((......)))))..))......)))))))))(((((..-...(((((((((((....))))..)-----)))))))))))....... ( -35.20)
>DroEre_CAF1 96618 109 + 1
CGCAGGCACUUUUCCAGCGUCUGGGCAUCUCCAGCAAGGUCAGCUACUGCCUGCGAAGCAU-AGGCUACUUUAGCUUCUUGGCUAAAACGCAGAAGGAGCUUUAACAAAU
((((((((....(((((...))))).......(((.......)))..)))))))).(((..-..))).....((((((((.((......))..))))))))......... ( -33.30)
>DroYak_CAF1 100252 94 + 1
CGCAUGCACUUUUCCAGCGUCUGGGCAUCACCAGAAAGGUCAGCUAGUGCCUGCAAAGUAC-GGGCUACUUUAGUUUGUUGGCUGAAACGCACAA---------------
....(((..(((.(((((((((((......)))))(((((.((((.((((.......))))-.)))))))))....))))))..)))..)))...--------------- ( -27.80)
>consensus
CGCAGGCACUUUUCCAGAGUCUGGGCAUCACCAGAAAGGUCAGCUAGUGCCUGCAAAGCAC_AGGUUACUUUAAUUUGUUGGUUUCA_____AAAUGAGCUUUAACAAAU
.(((((((((.........(((((......)))))..........)))))))))........................................................ (-16.78 = -18.31 +   1.53) 

alignment

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secondary structure

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dotplot

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Window 0

Location 1,936,137 – 1,936,246
Length 109
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 71.80
Mean single sequence MFE -29.68
Consensus MFE -16.63
Energy contribution -18.22
Covariance contribution 1.59
Combinations/Pair 1.21
Mean z-score -1.71
Structure conservation index 0.56
SVM decision value 0.95
SVM RNA-class probability 0.887846
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1936137 109 - 27905053
AUUGCUUAAAGCUCAUUUUGCGUUGGAACCAACAAAUCAAUGUAACUU-GUACUUUCCAGGCACUAGCUGACCUUUCUGGUGAUGCCCAGACUCUGGAAAAGUGCCUGCG
.......((((..((..(((((((((..........)))))))))..)-)..)))).((((((((.(((.(((.....))).).))((((...))))...)))))))).. ( -31.30)
>DroVir_CAF1 113366 86 - 1
------------------------GAAAAAAAAAAAGAAAAGCAACCCAACAUUUUGCAGACCGUAGCCGAUCUCACGGGCGAUGCGCAGAUUUUGGAGAAGUGCCUGAG
------------------------.................(((.(((((.((((((((..((((((.....)).))))....)))).)))).)))).)...)))..... ( -16.60)
>DroSec_CAF1 94377 104 - 1
AUUUGUUAAAGCUCACUU-----UGAAACCAACAAAUUAAAGUGACCU-GUGCUUUGCAGGCACUAGCUGACCUUUCUGGUGAUGCCCAGACUCUGGAAAAGUGCCUGCG
.......(((((((((((-----(((..........)))))))))...-..)))))(((((((((.(((.(((.....))).).))((((...))))...))))))))). ( -36.40)
>DroSim_CAF1 95755 104 - 1
AUUUGUUAAAGCUCACUU-----UGAAACCAACAAAUUAAAGUGACCU-GUGCUUUGCAGGCACUAGCUGACCUUUCUGGUGAUGCCCAGACUCUGGAAAAGUGCCUGCG
.......(((((((((((-----(((..........)))))))))...-..)))))(((((((((.(((.(((.....))).).))((((...))))...))))))))). ( -36.40)
>DroEre_CAF1 96618 109 - 1
AUUUGUUAAAGCUCCUUCUGCGUUUUAGCCAAGAAGCUAAAGUAGCCU-AUGCUUCGCAGGCAGUAGCUGACCUUGCUGGAGAUGCCCAGACGCUGGAAAAGUGCCUGCG
........((((.....((((...(((((......))))).))))...-..))))(((((((....(((..((.((((((......)))).))..))...)))))))))) ( -32.30)
>DroYak_CAF1 100252 94 - 1
---------------UUGUGCGUUUCAGCCAACAAACUAAAGUAGCCC-GUACUUUGCAGGCACUAGCUGACCUUUCUGGUGAUGCCCAGACGCUGGAAAAGUGCAUGCG
---------------.((..(.(((((((...........(((.(((.-((.....)).))))))..........(((((......))))).)))))))..)..)).... ( -25.10)
>consensus
AUUUGUUAAAGCUCAUUU_____UGAAACCAACAAAUUAAAGUAACCU_GUACUUUGCAGGCACUAGCUGACCUUUCUGGUGAUGCCCAGACUCUGGAAAAGUGCCUGCG
......................................((((((......))))))(((((((((.((..(((.....)))...))((((...))))...))))))))). (-16.63 = -18.22 +   1.59) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:15 2006