Locus 5923

Sequence ID 2L_DroMel_CAF1
Location 16,708,202 – 16,708,315
Length 113
Max. P 0.689237
window9417 window9418

overview

Window 7

Location 16,708,202 – 16,708,315
Length 113
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 83.57
Mean single sequence MFE -29.33
Consensus MFE -19.12
Energy contribution -19.69
Covariance contribution 0.57
Combinations/Pair 1.15
Mean z-score -2.02
Structure conservation index 0.65
SVM decision value 0.13
SVM RNA-class probability 0.597882
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16708202 113 + 22407834
CUUUGAAUGAGCUGAAAUUAAAGUUGAAUUGAAAAGCAAGCAAAGUGCUUAGGAAUUCAAAUAAUU--GGGAAU-----UGCCUUAGGCAAUUAGUAAAUUCAUUUCAGUCAUUAAGGGC
((((((.(((.(((((((.....(((((((...(((((.......)))))...)))))))....((--(..(((-----((((...)))))))..)))....)))))))))))))))).. ( -28.00)
>DroSec_CAF1 162788 113 + 1
CUCGGAAUGAGCUGAAAUUAAAGUUGAAUUGAAGGGCAAGCAAAGUGCUUAGGAAUUCAAAUAAUU--GGGAAU-----UGCCUUAGGCAAUUAGUAAAUUCAUUUCAGCCAUUAAGGGC
(((..((((.((((((((.....(((((((.(((.((.......)).)))...)))))))....((--(..(((-----((((...)))))))..)))....))))))))))))..))). ( -31.20)
>DroEre_CAF1 163957 120 + 1
CUCGGAAUUAGCUGCAAUUAAAGUUGGAUUCAAGGGCUGGCAUGGUGCUUUGGAAUUGAAAUUGUUUUUGGAAUGGAGAAGCCUCAGGCAAUUGGUAAAUUCAUUUCAGCCAUUAAGGCC
((.(((.((((((........)))))).))).))((((...(((((......(((((..((((((((..((..........))..))))))))....)))))......)))))...)))) ( -28.80)
>consensus
CUCGGAAUGAGCUGAAAUUAAAGUUGAAUUGAAGGGCAAGCAAAGUGCUUAGGAAUUCAAAUAAUU__GGGAAU_____UGCCUUAGGCAAUUAGUAAAUUCAUUUCAGCCAUUAAGGGC
(((..((((.((((((((.....(((((((...((((.........))))...)))))))..........((((.....((((...))))........))))))))))))))))..))). (-19.12 = -19.69 +   0.57)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,708,202 – 16,708,315
Length 113
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 83.57
Mean single sequence MFE -21.83
Consensus MFE -14.36
Energy contribution -15.92
Covariance contribution 1.56
Combinations/Pair 1.04
Mean z-score -2.15
Structure conservation index 0.66
SVM decision value 0.32
SVM RNA-class probability 0.689237
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16708202 113 - 22407834
GCCCUUAAUGACUGAAAUGAAUUUACUAAUUGCCUAAGGCA-----AUUCCC--AAUUAUUUGAAUUCCUAAGCACUUUGCUUGCUUUUCAAUUCAACUUUAAUUUCAGCUCAUUCAAAG
......((((((((((((.........(((((((...))))-----)))...--......(((((((...(((((.......)))))...))))))).....))))))).)))))..... ( -24.50)
>DroSec_CAF1 162788 113 - 1
GCCCUUAAUGGCUGAAAUGAAUUUACUAAUUGCCUAAGGCA-----AUUCCC--AAUUAUUUGAAUUCCUAAGCACUUUGCUUGCCCUUCAAUUCAACUUUAAUUUCAGCUCAUUCCGAG
...(((((((((((((((.........(((((((...))))-----)))...--......(((((((..(((((.....)))))......))))))).....)))))))).))))..))) ( -24.50)
>DroEre_CAF1 163957 120 - 1
GGCCUUAAUGGCUGAAAUGAAUUUACCAAUUGCCUGAGGCUUCUCCAUUCCAAAAACAAUUUCAAUUCCAAAGCACCAUGCCAGCCCUUGAAUCCAACUUUAAUUGCAGCUAAUUCCGAG
((..((((.(((((...((.......))...((.((..((((............................))))..)).))))))).))))..))......................... ( -16.49)
>consensus
GCCCUUAAUGGCUGAAAUGAAUUUACUAAUUGCCUAAGGCA_____AUUCCC__AAUUAUUUGAAUUCCUAAGCACUUUGCUUGCCCUUCAAUUCAACUUUAAUUUCAGCUCAUUCCGAG
.........(((((((((((((........((((...)))).....))))..........(((((....(((((.....)))))...)))))..........)))))))))......... (-14.36 = -15.92 +   1.56)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:41 2006