Locus 5042

Sequence ID 3L_DroMel_CAF1
Location 13,802,205 – 13,802,360
Length 155
Max. P 0.833066
window7999 window8000

overview

Window 9

Location 13,802,205 – 13,802,320
Length 115
Sequences 4
Columns 115
Reading direction reverse
Mean pairwise identity 87.39
Mean single sequence MFE -21.46
Consensus MFE -17.04
Energy contribution -17.23
Covariance contribution 0.19
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.79
SVM decision value 0.72
SVM RNA-class probability 0.833066
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13802205 115 - 23771897
CAUCCAAUGAAGGCUUCAAACUGCCGGGCGACAAUUGCAAUUAAUUGCAUAUUUUAAGCCAUUCCAGAUUGGAACCGCAGACGUGAACAACAAAAAUUGCAAUACAACAAGAAAA
..((((((...(((........))).(((......(((((....)))))........))).......))))))...((((...((.....))....))))............... ( -22.94)
>DroSec_CAF1 39046 115 - 1
CAUCCAAUGAAGGCUUCAAACUGCCGGGCGACAAUUGCAAUUAAUUGCAUAUUUUAAGCCAUUCCAGAUUGGAACCGCAGACGUGAACAACAACAAUUGCAAUACAACAAGAAAA
..((((((...(((........))).(((......(((((....)))))........))).......))))))...((((..((........))..))))............... ( -23.94)
>DroEre_CAF1 39796 115 - 1
CAUCCAAUGAAGGCUUCAAACUGCCGGGCGACAAUUGCAAUUAAUUGCAUAUUUUAAGCCAUUCCAGAUUGGAACCGCAGACGUGAACAACAACAAUUGCAAUACAACAAGAAAA
..((((((...(((........))).(((......(((((....)))))........))).......))))))...((((..((........))..))))............... ( -23.94)
>DroYak_CAF1 37860 87 - 1
----------------------------CGACAAUUGCAAUUAAUUGCAUAUUUUAAGCCAUUCCAGAUUGGAACCGCAGACGUGAACAACAACAAUUGCAAUACAACAAGAAAA
----------------------------.....(((((((((...............((..((((.....))))..))....((.....))...)))))))))............ ( -15.00)
>consensus
CAUCCAAUGAAGGCUUCAAACUGCCGGGCGACAAUUGCAAUUAAUUGCAUAUUUUAAGCCAUUCCAGAUUGGAACCGCAGACGUGAACAACAACAAUUGCAAUACAACAAGAAAA
...........(((........)))........(((((((((...............((..((((.....))))..))....((.....))...)))))))))............ (-17.04 = -17.23 +   0.19)

alignment

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secondary structure

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dotplot

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Window 0

Location 13,802,243 – 13,802,360
Length 117
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 99.43
Mean single sequence MFE -31.97
Consensus MFE -30.93
Energy contribution -31.27
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.97
SVM decision value 0.31
SVM RNA-class probability 0.681526
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13802243 117 - 23771897
GAUGCUGCCGCUGCACAUUCUCUGGAAAGGUAAACAUUGUCAUCCAAUGAAGGCUUCAAACUGCCGGGCGACAAUUGCAAUUAAUUGCAUAUUUUAAGCCAUUCCAGAUUGGAACCG
((((.(((....))))))).(((((((.(((....((((((..((......(((........)))))..))))))(((((....)))))........))).)))))))......... ( -31.90)
>DroSec_CAF1 39084 117 - 1
GAUGCUGCCGCUGCAUAUUCUCUGGAAAGGUAAACAUUGUCAUCCAAUGAAGGCUUCAAACUGCCGGGCGACAAUUGCAAUUAAUUGCAUAUUUUAAGCCAUUCCAGAUUGGAACCG
.((((.......))))....(((((((.(((....((((((..((......(((........)))))..))))))(((((....)))))........))).)))))))......... ( -32.00)
>DroEre_CAF1 39834 117 - 1
GAUGCUGCCGCUGCAUAUUCUCUGGAAAGGUAAACAUUGUCAUCCAAUGAAGGCUUCAAACUGCCGGGCGACAAUUGCAAUUAAUUGCAUAUUUUAAGCCAUUCCAGAUUGGAACCG
.((((.......))))....(((((((.(((....((((((..((......(((........)))))..))))))(((((....)))))........))).)))))))......... ( -32.00)
>consensus
GAUGCUGCCGCUGCAUAUUCUCUGGAAAGGUAAACAUUGUCAUCCAAUGAAGGCUUCAAACUGCCGGGCGACAAUUGCAAUUAAUUGCAUAUUUUAAGCCAUUCCAGAUUGGAACCG
.((((.......))))....(((((((.(((....((((((..((......(((........)))))..))))))(((((....)))))........))).)))))))......... (-30.93 = -31.27 +   0.33)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:40 2006