Locus 4529

Sequence ID 2L_DroMel_CAF1
Location 12,972,814 – 12,972,970
Length 156
Max. P 0.993052
window7128 window7129

overview

Window 8

Location 12,972,814 – 12,972,932
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.20
Mean single sequence MFE -40.22
Consensus MFE -32.78
Energy contribution -32.94
Covariance contribution 0.16
Combinations/Pair 1.04
Mean z-score -1.75
Structure conservation index 0.82
SVM decision value 0.69
SVM RNA-class probability 0.822362
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12972814 118 - 22407834
UCUCGAGUCGCAGCAUUUGCAUAAUAAGGCAGCAGUGCAUGUGGCAUGAGGAU--CUGCCUGCGAUUCAUUGCAAAUUUCUAUCAGCCCUGUGAACGGGGAUUCCCCUCACUGCAGAUGU
(((((.((((((((((((((........)))..))))).)))))).)))))((--((((.(((((....)))))............(((((....)))))............)))))).. ( -40.30)
>DroSec_CAF1 17646 118 - 1
UCUCGAGUCGCAGCAUUUGCAUAAUAAGGCAGCAGUGCAUGUGGCAUGAGGAU--CUGCCUGCGAUUCAUUGCAAAUUUCUAUCAGCCCUGGGAACGGGGAAUCCCCUCACUGCAGAUGU
(((((.((((((((((((((........)))..))))).)))))).)))))((--((((.(((((....)))))............(((((....)))))............)))))).. ( -40.80)
>DroSim_CAF1 18599 118 - 1
UCUCGAGUCGCAGCAUUUGCAUAAUAAGGCAGCAGUGCAUGUGGCAUGAGGAU--CUGCCAGCGAUUCAUUGCAAAUUUCUAUCAGCCCUGGGAACGGGGAUUCCCCUCACUGCAGAUGU
(((((.((((((((((((((........)))..))))).)))))).)))))((--((((..((((....)))).............(((((....)))))............)))))).. ( -40.20)
>DroEre_CAF1 6126 118 - 1
UCUCGAGUCGCAGCAUUUGCAUAAUAAGGCAGCAGUGCAUGCGGCAUGAUGAU--CUGCCAGCGAUUCAUUGGAAAUUUCUAUCAGCUCUGGGAACGGGGAUUCCCCGCACUGCAGAUGU
....(((((((.((....)).......(((((..((((.....))))......--))))).)))))))..((((....))))...((((((((..(((((...)))))..)).)))).)) ( -37.90)
>DroYak_CAF1 20232 120 - 1
UCUCGAGUCGCAGCAUUUGCAUAAUAAGGCAGCUGUGAAUGUGGCAUGAGGAUCUCUGCCUGCGAUUCAUUGCAAAUUUCUAUCAGCUCUGCGAACGGGGAUUCCCCGCACUGCAGAUGU
....(((((((((((((..((............))..)))))((((.(((...))))))))))))))).................((((((((..(((((...)))))...)))))).)) ( -41.90)
>consensus
UCUCGAGUCGCAGCAUUUGCAUAAUAAGGCAGCAGUGCAUGUGGCAUGAGGAU__CUGCCUGCGAUUCAUUGCAAAUUUCUAUCAGCCCUGGGAACGGGGAUUCCCCUCACUGCAGAUGU
....(((((((.((....)).......(((((..((((.....))))........))))).))))))).(((((............(((((....)))))...........))))).... (-32.78 = -32.94 +   0.16)

alignment

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secondary structure

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dotplot

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Window 9

Location 12,972,854 – 12,972,970
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.34
Mean single sequence MFE -42.66
Consensus MFE -34.36
Energy contribution -34.60
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -3.18
Structure conservation index 0.81
SVM decision value 2.37
SVM RNA-class probability 0.993052
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12972854 116 - 22407834
CUUAUAAAUCGAUGACGUUGGCAGGCAGCGAG--AGCGCAUCUCGAGUCGCAGCAUUUGCAUAAUAAGGCAGCAGUGCAUGUGGCAUGAGGAU--CUGCCUGCGAUUCAUUGCAAAUUUC
.........(((((((((.(((((((.((...--.)))).(((((.((((((((((((((........)))..))))).)))))).)))))..--))))).)))..))))))........ ( -42.90)
>DroSec_CAF1 17686 113 - 1
CUUAUAAAUCGAUGACGUUGGCAGG---CGAG--AGCGCAUCUCGAGUCGCAGCAUUUGCAUAAUAAGGCAGCAGUGCAUGUGGCAUGAGGAU--CUGCCUGCGAUUCAUUGCAAAUUUC
.........(((((((((.((((((---(...--.))...(((((.((((((((((((((........)))..))))).)))))).)))))..--))))).)))..))))))........ ( -40.90)
>DroSim_CAF1 18639 113 - 1
CUUAUAAAUCGAUGACGUUGGCAGG---CGAG--AGCGCAUCUCGAGUCGCAGCAUUUGCAUAAUAAGGCAGCAGUGCAUGUGGCAUGAGGAU--CUGCCAGCGAUUCAUUGCAAAUUUC
.........((((((((((((((((---(...--.))...(((((.((((((((((((((........)))..))))).)))))).)))))..--)))))))))..))))))........ ( -44.70)
>DroEre_CAF1 6166 115 - 1
CUUAUAAAUCGAUGACGUUGGCAGG---CGAGUGAGCGCAUCUCGAGUCGCAGCAUUUGCAUAAUAAGGCAGCAGUGCAUGCGGCAUGAUGAU--CUGCCAGCGAUUCAUUGGAAAUUUC
........(((((((((((((((((---((......)))((((((.((((((((((((((........)))..))))).)))))).))).)))--)))))))))..)))))))....... ( -45.40)
>DroYak_CAF1 20272 115 - 1
CUUAUAAAUCGAUGACGUUGGCAGG---CGAG--AGCGCAUCUCGAGUCGCAGCAUUUGCAUAAUAAGGCAGCUGUGAAUGUGGCAUGAGGAUCUCUGCCUGCGAUUCAUUGCAAAUUUC
.........((((((...(.(((((---((((--(...(((.(((..(((((((...(((........))))))))))...))).)))....)))).)))))).).))))))........ ( -39.40)
>consensus
CUUAUAAAUCGAUGACGUUGGCAGG___CGAG__AGCGCAUCUCGAGUCGCAGCAUUUGCAUAAUAAGGCAGCAGUGCAUGUGGCAUGAGGAU__CUGCCUGCGAUUCAUUGCAAAUUUC
.........(((((((((.(((((....((......))..(((((.((((((((((((((........))))..)))).)))))).)))))....))))).)))..))))))........ (-34.36 = -34.60 +   0.24)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:08 2006