Locus 9745

Sequence ID 3R_DroMel_CAF1
Location 25,788,944 – 25,789,098
Length 154
Max. P 0.740442
window15566 window15567

overview

Window 6

Location 25,788,944 – 25,789,060
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.90
Mean single sequence MFE -32.13
Consensus MFE -22.95
Energy contribution -24.41
Covariance contribution 1.46
Combinations/Pair 1.11
Mean z-score -1.83
Structure conservation index 0.71
SVM decision value 0.45
SVM RNA-class probability 0.740442
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25788944 116 - 27905053
UGUCUAAAAGCAUGCAACAUAAAAUGUGGUGCAAAUGCGCACGGCUUUAAA----AUUGUAGCAUACUUUUGGGCUGCGCACCCAAGCCGCAUGGAUCCCUUUCACUUUCUGCGGUCGCC
.(((((((((.((((.(((......((.((((......)))).))......----..))).)))).))))))))).(((.......((((((.(((...........)))))))))))). ( -36.75)
>DroSec_CAF1 32416 115 - 1
UGUCUAAAAGCAUGCAACAUAAAAUUUGGUGCAAAUGCGCACGGCUUUAAA----AGUGUAGCAUACUUUUGGGCGGCGCACCCAAGCCGCAUGGAUC-CUUUCACCUUCUGUGGUCGCC
.(((((((((.((((.((((.(((.(((((((....)))).))).)))...----.)))).)))).)))))))))((((.......((((((((((..-..)))).....)))))))))) ( -35.51)
>DroSim_CAF1 32688 114 - 1
UGUCUAAAAGCAUGCAACAUAAAAUUUGGUGCAAAUGCGCACGGCUUUAA-----AUUGUAGCAUACUUUUGGGCGGCACAGCCAAGCCGCAUGGAUC-CUUUCACCUUCUGUGGUCGCC
.(((((((((.((((.(((..(((.(((((((....)))).))).)))..-----..))).)))).)))))))))(((...)))..((((((((((..-..)))).....)))))).... ( -33.70)
>DroEre_CAF1 33879 119 - 1
AGUCUAAAAGCAUGCAACAUAAUAUCCACAGCGAAUGCGCACGACUUUA-AAUAUACUGUAGCAUACUUUUAGGCGGCGCACCCAAGCCACACGGAUUCCUUUCACUUUCUGUGGUCGCU
.(((((((((.((((.(((..((((....((((........)).))...-.))))..))).)))).)))))))))(((........))).((((((............))))))...... ( -30.80)
>DroYak_CAF1 31867 108 - 1
UGUCUAAAAGCAUGCAACAUAAUAUC------------GCACGACUUUAAAAUAUAUUGUAGCACACUUUUAGGCGGCGCACCCAUUACACAAGGAUUCCUUUCACUUUCUGCGGUCGCU
.(((((((((..(((.(((..((((.------------.............))))..))).)))..)))))))))((((.(((((......((((...))))........)).))))))) ( -23.88)
>consensus
UGUCUAAAAGCAUGCAACAUAAAAUCUGGUGCAAAUGCGCACGGCUUUAAA____AUUGUAGCAUACUUUUGGGCGGCGCACCCAAGCCGCAUGGAUCCCUUUCACUUUCUGUGGUCGCC
.(((((((((.((((.((((((......((((....))))......)))........))).)))).)))))))))((((.......((((((.(((...........))))))))))))) (-22.95 = -24.41 +   1.46)

alignment

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secondary structure

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dotplot

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Window 7

Location 25,788,984 – 25,789,098
Length 114
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 79.78
Mean single sequence MFE -28.48
Consensus MFE -16.58
Energy contribution -17.84
Covariance contribution 1.26
Combinations/Pair 1.04
Mean z-score -1.76
Structure conservation index 0.58
SVM decision value 0.02
SVM RNA-class probability 0.543720
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25788984 114 - 27905053
GAUGAAACUAAAUAUCACUGAAAACACUUGCAUUAAGGUGUCUAAAAGCAUGCAACAUAAAAUGUGGUGCAAAUGCGCACGGCUUUAAA----AUUGUAGCAUACUUUUGGGCUGCGC
((((........)))).........((((......))))(((((((((.((((.(((......((.((((......)))).))......----..))).)))).)))))))))..... ( -27.74)
>DroSec_CAF1 32455 113 - 1
UAUCGCACUGAA-AUCGCUGAAAACACUUGCUUUAAGGUGUCUAAAAGCAUGCAACAUAAAAUUUGGUGCAAAUGCGCACGGCUUUAAA----AGUGUAGCAUACUUUUGGGCGGCGC
....((((..((-...(((....((((((......)))))).....)))(((...)))....))..))))....((((.((.((..(((----(((((...)))))))))).)))))) ( -32.30)
>DroSim_CAF1 32727 112 - 1
UAUCGCACUAAA-AUCGCUGCAAACACUUUCUUUAAGGUGUCUAAAAGCAUGCAACAUAAAAUUUGGUGCAAAUGCGCACGGCUUUAA-----AUUGUAGCAUACUUUUGGGCGGCAC
............-...(((((..(((((((....)))))))(((((((.((((.(((..(((.(((((((....)))).))).)))..-----..))).)))).)))))))))))).. ( -33.10)
>DroEre_CAF1 33919 116 - 1
UAUGCCACAGAA-AUCGAUGAAAACUCUGGCUUUGAGGAGUCUAAAAGCAUGCAACAUAAUAUCCACAGCGAAUGCGCACGACUUUA-AAUAUACUGUAGCAUACUUUUAGGCGGCGC
...(((......-...........(((.......)))..(((((((((.((((.(((..((((....((((........)).))...-.))))..))).)))).)))))))))))).. ( -27.30)
>DroYak_CAF1 31907 105 - 1
UAUGCCACAGAA-AUCGAUGAACACACUGGCACGUAGGUGUCUAAAAGCAUGCAACAUAAUAUC------------GCACGACUUUAAAAUAUAUUGUAGCACACUUUUAGGCGGCGC
..(((((.....-..............)))))....(.((((((((((..(((.(((..((((.------------.............))))..))).)))..)))))))))).).. ( -21.95)
>consensus
UAUGCCACUGAA_AUCGCUGAAAACACUUGCUUUAAGGUGUCUAAAAGCAUGCAACAUAAAAUCUGGUGCAAAUGCGCACGGCUUUAAA____AUUGUAGCAUACUUUUGGGCGGCGC
....................................(.((((((((((.((((.((((((......((((....))))......)))........))).)))).)))))))))).).. (-16.58 = -17.84 +   1.26)

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 13:41:13 2006