Locus 4854

Sequence ID 3L_DroMel_CAF1
Location 13,595,185 – 13,595,317
Length 132
Max. P 0.826537
window7655 window7656

overview

Window 5

Location 13,595,185 – 13,595,277
Length 92
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 87.00
Mean single sequence MFE -24.78
Consensus MFE -20.13
Energy contribution -20.57
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -1.77
Structure conservation index 0.81
SVM decision value 0.70
SVM RNA-class probability 0.826537
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13595185 92 - 23771897
GGCUUUGUCCAGGUCGU--AGGCCAAAACUUUUGCCA---------------AGCAAAAGCAGAAGAUACUAAACCGAACCUUUGGCCAAUUUUCCAUGCUGCCAUUAU
(((...((...((..((--.(((((((.(((((((..---------------.......)))))))...(......)....))))))).))...))..)).)))..... ( -21.80)
>DroSec_CAF1 2050 92 - 1
GGCUUUGUCCAGGUCGU--AGGCCAAAACUUUUGCCA---------------AGCCAAAGCAGAAGAUACUGAACCAAACCUUUGGCCAAUUUUCCAUGCUGCCAUUAU
(((...((...((..((--.(((((((.(((((((..---------------.......))))))).....(........)))))))).))...))..)).)))..... ( -21.30)
>DroSim_CAF1 11408 92 - 1
GGCUUUGUCCAGGUCGU--AGGCCAAAACUUUUGCCA---------------AGCAAAAGCAGAAGAUACUGAACCAAACCUUUGGCCAAUUUUCCAUGCUGCCAUUAU
(((...((...((..((--.(((((((.(((((((..---------------.)))))))(((......))).........))))))).))...))..)).)))..... ( -24.30)
>DroEre_CAF1 3263 89 - 1
GGCUUUGUCCAGGUCGU--AGGCCAAAACUUUUGC-AAGC------------AGCAAAAGCAGAAGAUACUGA-----ACCUUUGGCCAAUUUUCCAUGCUGCCAUUAU
(((...((...((..((--.(((((((.(((((((-....------------.)))))))(((......))).-----...))))))).))...))..)).)))..... ( -25.90)
>DroYak_CAF1 8070 104 - 1
GGCUUUGUCCAGGUCGUGUUGGCCAAAACUUUUGCCAAGCAUGCCAGGCAAAAGCUAAAGCAGAAGAUACUGA-----ACCUUUGGCCAAUUUUCCAUGCUGUCAUUAU
(((...((...((....((((((((((.((((((((..(....)..))))))))......(((......))).-----...))))))))))...))..)).)))..... ( -30.60)
>consensus
GGCUUUGUCCAGGUCGU__AGGCCAAAACUUUUGCCA_______________AGCAAAAGCAGAAGAUACUGAACC_AACCUUUGGCCAAUUUUCCAUGCUGCCAUUAU
(((...((...((.......(((((((.(((((((..................)))))))(((......))).........)))))))......))..)).)))..... (-20.13 = -20.57 +   0.44)

alignment

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secondary structure

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dotplot

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Window 6

Location 13,595,218 – 13,595,317
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.92
Mean single sequence MFE -34.16
Consensus MFE -21.07
Energy contribution -21.18
Covariance contribution 0.12
Combinations/Pair 1.24
Mean z-score -1.26
Structure conservation index 0.62
SVM decision value 0.02
SVM RNA-class probability 0.543897
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13595218 99 + 23771897
GGUUUAGUAUCUUCUGCUUUUGCU---------------UGGCAAAAGUUUUGGCCU--ACGACCUG----GACAAAGCCGAAACCAGGUAGCACUCUAAUUGGGUCAGGGCGGAAGGAA
.........(((((((((((((((---------------(((.....((((((.((.--.......)----).)))))).....)))))))(.((((.....)))))))))))))))).. ( -31.50)
>DroSec_CAF1 2083 99 + 1
GGUUCAGUAUCUUCUGCUUUGGCU---------------UGGCAAAAGUUUUGGCCU--ACGACCUG----GACAAAGCCGAAAUCAGGUAGCACUCUAAUUGGGUCAGGGCGGAAGGAA
.........(((((((((((((((---------------(((.....((((((.((.--.......)----).)))))).....))))))...((((.....)))))))))))))))).. ( -31.10)
>DroSim_CAF1 11441 99 + 1
GGUUCAGUAUCUUCUGCUUUUGCU---------------UGGCAAAAGUUUUGGCCU--ACGACCUG----GACAAAGCCGAAACCAGGUAGCACUCUAAUUGGGUCAGGGCGGAAGGAA
.........(((((((((((((((---------------(((.....((((((.((.--.......)----).)))))).....)))))))(.((((.....)))))))))))))))).. ( -31.50)
>DroEre_CAF1 3294 98 + 1
---UCAGUAUCUUCUGCUUUUGCU------------GCUU-GCAAAAGUUUUGGCCU--ACGACCUG----GACAAAGCCGAAACCAGGUAGCACUCUAAUUGGGUCAGGGCGGAAGGAA
---......(((((((((((.(((------------((((-(.....((((((((..--........----......))))))))))))))))((((.....)))).))))))))))).. ( -33.89)
>DroYak_CAF1 8101 113 + 1
---UCAGUAUCUUCUGCUUUAGCUUUUGCCUGGCAUGCUUGGCAAAAGUUUUGGCCAACACGACCUG----GACAAAGCCGAAACCAGGUAGCACUCUAAUUGGGUCAGGGCGGAAGGAA
---......(((((((((((((((((((((.((....)).))))))))))..((((......(((((----(............))))))....(.......)))))))))))))))).. ( -39.80)
>DroAna_CAF1 38005 103 + 1
GGCGCAGUCUAACCACG--------UUUCCCGGC------GGCGGCGG--GUGGCCGACAAGACAUGUGUGUCCAUGGGCAGCACCUGGCAGCG-UCUAAUUGGGUCAGGCCGGGUGGAG
.(((((((((.....((--------(......))------).((((..--...))))...)))).)))))(((....)))..((((((((...(-.((.....)).)..))))))))... ( -37.20)
>consensus
GGUUCAGUAUCUUCUGCUUUUGCU_______________UGGCAAAAGUUUUGGCCU__ACGACCUG____GACAAAGCCGAAACCAGGUAGCACUCUAAUUGGGUCAGGGCGGAAGGAA
.........(((((((((((....................(((.((....)).))).....((((((..........(((.......)))...........))))))))))))))))).. (-21.07 = -21.18 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:13 2006