Locus 2929

Sequence ID X_DroMel_CAF1
Location 7,840,053 – 7,840,151
Length 98
Max. P 0.792843
window4796 window4797

overview

Window 6

Location 7,840,053 – 7,840,151
Length 98
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 82.11
Mean single sequence MFE -24.26
Consensus MFE -16.40
Energy contribution -17.02
Covariance contribution 0.63
Combinations/Pair 1.09
Mean z-score -1.91
Structure conservation index 0.68
SVM decision value 0.59
SVM RNA-class probability 0.792843
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7840053 98 + 22224390
-------------------GAUGGCACACACUUACGGGUUAAAUAAUAUCAAGCAUAUGCGAGUGCCAUUAC---AUCCUUGUAAUUGCCAAAAUAAUGGGAAUUAUGCGUAUGAGAAAG
-------------------((((((((.........(((........)))..((....))..)))))))).(---((.(.(((((((.(((......))).))))))).).)))...... ( -23.50)
>DroEre_CAF1 25381 98 + 1
-------------------AAUGGCACACACUUACGGGUUAAAUAAUAUCAAGCAUAUGCAAGUGCCAUUAC---AUCCUUGUAAUUGCCAAAAUAAUGGGAAUUAUGCGUAUGAGAAAG
-------------------((((((((.........(((........)))..((....))..)))))))).(---((.(.(((((((.(((......))).))))))).).)))...... ( -23.10)
>DroYak_CAF1 19963 98 + 1
-------------------GAUGGCGCACACUUACGGGUUAAAUUAUAUCAAGCAGAUGCAAGUGCCAUUAC---AUCCUUGUAAUUGCCAAAAUAAUGGGAAUUAUGCGUAUGAGAAAG
-------------------((((((((.........(((........)))..((....))..)))))))).(---((.(.(((((((.(((......))).))))))).).)))...... ( -23.10)
>DroAna_CAF1 12346 118 + 1
CAGAAGACAGGAGCUGGAGAAUGGC--AUACCAGCGGCUUAAAUAAUAUCAGACAUAUGCAAUUGCCAUUACAAUAUCCUUGUAAUUGCCAAAAUAAUGGCAAUUAUGCCUAUGAGAAAG
........(((((((((........--...)))))(((.......((((.....))))......))).........)))).((((((((((......))))))))))............. ( -27.32)
>consensus
___________________AAUGGCACACACUUACGGGUUAAAUAAUAUCAAGCAUAUGCAAGUGCCAUUAC___AUCCUUGUAAUUGCCAAAAUAAUGGGAAUUAUGCGUAUGAGAAAG
...................((((((((.........(((........)))..((....))..))))))))...........((((((.(((......))).))))))............. (-16.40 = -17.02 +   0.63)

alignment

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secondary structure

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dotplot

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Window 7

Location 7,840,053 – 7,840,151
Length 98
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 82.11
Mean single sequence MFE -23.42
Consensus MFE -14.16
Energy contribution -15.23
Covariance contribution 1.06
Combinations/Pair 1.04
Mean z-score -1.95
Structure conservation index 0.60
SVM decision value 0.23
SVM RNA-class probability 0.644285
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7840053 98 - 22224390
CUUUCUCAUACGCAUAAUUCCCAUUAUUUUGGCAAUUACAAGGAU---GUAAUGGCACUCGCAUAUGCUUGAUAUUAUUUAACCCGUAAGUGUGUGCCAUC-------------------
........(((((.(((((.(((......))).)))))....).)---)))(((((((.(((.((((.((((......))))..)))).))).))))))).------------------- ( -22.40)
>DroEre_CAF1 25381 98 - 1
CUUUCUCAUACGCAUAAUUCCCAUUAUUUUGGCAAUUACAAGGAU---GUAAUGGCACUUGCAUAUGCUUGAUAUUAUUUAACCCGUAAGUGUGUGCCAUU-------------------
......(((.(...(((((.(((......))).)))))...).))---).((((((((.(((.((((.((((......))))..)))).))).))))))))------------------- ( -19.90)
>DroYak_CAF1 19963 98 - 1
CUUUCUCAUACGCAUAAUUCCCAUUAUUUUGGCAAUUACAAGGAU---GUAAUGGCACUUGCAUCUGCUUGAUAUAAUUUAACCCGUAAGUGUGCGCCAUC-------------------
..........(((((((((.(((......))).)))).(((((((---((((......)))))))..))))....................))))).....------------------- ( -18.10)
>DroAna_CAF1 12346 118 - 1
CUUUCUCAUAGGCAUAAUUGCCAUUAUUUUGGCAAUUACAAGGAUAUUGUAAUGGCAAUUGCAUAUGUCUGAUAUUAUUUAAGCCGCUGGUAU--GCCAUUCUCCAGCUCCUGUCUUCUG
..........(((.(((((((((......)))))))))...((((((((((((....)))))).))))))............)))(((((...--........)))))............ ( -33.30)
>consensus
CUUUCUCAUACGCAUAAUUCCCAUUAUUUUGGCAAUUACAAGGAU___GUAAUGGCACUUGCAUAUGCUUGAUAUUAUUUAACCCGUAAGUGUGUGCCAUC___________________
......(((((((.(((((.(((......))).)))))...((.....((((((.((...((....)).)).)))))).....))....)))))))........................ (-14.16 = -15.23 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:52 2006