Locus 7150

Sequence ID 3R_DroMel_CAF1
Location 18,842,243 – 18,842,374
Length 131
Max. P 0.923376
window11567 window11568

overview

Window 7

Location 18,842,243 – 18,842,340
Length 97
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 84.02
Mean single sequence MFE -16.38
Consensus MFE -14.27
Energy contribution -14.53
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.96
Structure conservation index 0.87
SVM decision value 1.15
SVM RNA-class probability 0.923376
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18842243 97 + 27905053
AAACCGCGACAAGUGCGCUUGUCCUUCCAAUUUGUCCCCC-ACUACCCAUUUCCCCACCCCAUUUUCCCACCCUCCCGGCAUAAUUUGCAAUGGGAAA
.......((((((....)))))).................-................................((((.(((.....)))...)))).. ( -16.20)
>DroSec_CAF1 67081 96 + 1
AAACCGCGACAAGUGCGCUUGUGCUUCCAAUUU-UCCCCC-ACUACCCAUUUCCCAUACCCAUAUUCCCAUCCUCCCGGCAUAAUUUGCAAUGGGAAA
.....((.(((((....))))))).........-......-........((((((((...........(........)(((.....))).)))))))) ( -17.00)
>DroSim_CAF1 70569 96 + 1
AAACCGCGACAAGUGCGCUUGUGCUUCCAAUUU-UCCCCC-ACUACCCAUUUCCCAUCCCCAUUUUCCCACCCUCCCGGCAUAAUUUGCAAUGGGAAA
.....((.(((((....))))))).........-......-........((((((((...........(........)(((.....))).)))))))) ( -16.40)
>DroYak_CAF1 71490 79 + 1
AAACCGCGACAAGUGUGCUUGUGCUUUCAAUUU-CCCCCCCA------------------CAUUUUCCACCACUCCCGGCAUAAUUUGCAAUGGGAAA
.....((.(((((....))))))).........-........------------------.............((((.(((.....)))...)))).. ( -15.90)
>consensus
AAACCGCGACAAGUGCGCUUGUGCUUCCAAUUU_UCCCCC_ACUACCCAUUUCCCAUCCCCAUUUUCCCACCCUCCCGGCAUAAUUUGCAAUGGGAAA
.....((.(((((....))))))).................................................((((.(((.....)))...)))).. (-14.27 = -14.53 +   0.25)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,842,270 – 18,842,374
Length 104
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 81.96
Mean single sequence MFE -15.84
Consensus MFE -13.50
Energy contribution -13.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.89
Structure conservation index 0.85
SVM decision value 1.00
SVM RNA-class probability 0.897658
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18842270 104 + 27905053
CAAUUUGUCCCCC-ACUACCCAUUUCCCCACCCCAUUUUCCCACCCUCCCGGCAUAAUUUGCAAUGGGAAACCCAGACCGAUCUAUUGGUUAUUUAAUUAAUGUG
............(-((....................(((((((........(((.....)))..)))))))....((((((....))))))...........))) ( -14.90)
>DroSec_CAF1 67108 103 + 1
CAAUUU-UCCCCC-ACUACCCAUUUCCCAUACCCAUAUUCCCAUCCUCCCGGCAUAAUUUGCAAUGGGAAACCCAGACCGAUCUAUUGGUUAUUUAAUUAAUGUG
......-.....(-((......((((((((...........(........)(((.....))).))))))))....((((((....))))))...........))) ( -16.30)
>DroSim_CAF1 70596 103 + 1
CAAUUU-UCCCCC-ACUACCCAUUUCCCAUCCCCAUUUUCCCACCCUCCCGGCAUAAUUUGCAAUGGGAAACCCAGACCGAUCUAUUGGUUAUUUAAUUAAUGUG
......-.....(-((......((((((((...........(........)(((.....))).))))))))....((((((....))))))...........))) ( -15.70)
>DroEre_CAF1 67266 79 + 1
CCAUUU-UCCCCC-A------------------------CUGCCACUCCCGGCAUAAUUUGCAAUGGGAAACCCAGACCGAUCUAUUGGUUAUUUAAUUAAUGUG
......-.....(-(------------------------(((((......))))(((((......((....))..((((((....))))))....)))))..))) ( -14.90)
>DroYak_CAF1 71517 86 + 1
CAAUUU-CCCCCCCA------------------CAUUUUCCACCACUCCCGGCAUAAUUUGCAAUGGGAAACCCAGACCGAUCUAUUGGUUAUUUAAUUAAUGUG
......-......((------------------((((.........((((.(((.....)))...))))......((((((....))))))........)))))) ( -17.40)
>consensus
CAAUUU_UCCCCC_ACUACCCAUUUCCC___CCCAUUUUCCCACCCUCCCGGCAUAAUUUGCAAUGGGAAACCCAGACCGAUCUAUUGGUUAUUUAAUUAAUGUG
..............................................((((.(((.....)))...))))......((((((....)))))).............. (-13.50 = -13.50 +   0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:40 2006