Locus 138

Sequence ID 3R_DroMel_CAF1
Location 739,398 – 739,518
Length 120
Max. P 0.689888
window221 window222

overview

Window 1

Location 739,398 – 739,518
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.53
Mean single sequence MFE -26.73
Consensus MFE -22.23
Energy contribution -22.22
Covariance contribution -0.00
Combinations/Pair 1.12
Mean z-score -1.42
Structure conservation index 0.83
SVM decision value -0.02
SVM RNA-class probability 0.525256
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 739398 120 + 27905053
CAUUUCUUCUCCAUGCAUAUGAUUUUGCCACCUUUAGGCGGCUUUUAUCGUACUUUGUUCAACAAAUUGCCAUAAUUUGUUGUAAAUUCCAAUCAAGUGGUUGCCACUAGUGGUUCGCAU
............((((.((((((...(((.((....)).)))....)))))).......((((((((((...))))))))))......(((....(((((...)))))..)))...)))) ( -29.20)
>DroSec_CAF1 6737 120 + 1
CAUUCCCUCUCCGUGCACAUGAUUUUGCAAUCUUUAGGCGGCUUCUAUCGUGCUUUGUUCAACAAAUUGCCAUAAUUUGUUGUAAAUUCCAAUCAAGUGGUUGCCACUAGUGGUUCGCAC
............((((.((((((...((..((....))..))....)))))).......((((((((((...))))))))))......(((....(((((...)))))..)))...)))) ( -25.90)
>DroSim_CAF1 6746 120 + 1
CAUUCCCUCUGCGUGCACAUGAUUUUGCAAUCUUUAGGCGGCUUCUAUCGUGCUUUGUUCAACAAAUUGCCAUAAUUUGUUGUAAAUUCCAAUCAAGUGGUUGCCACUAGUGGUUCGCAC
.........((((.((.(((((((....))))....(((((((.((....((.......((((((((((...)))))))))).......))....)).)))))))....))))).)))). ( -27.74)
>DroEre_CAF1 7172 118 + 1
CAUUUCUUCUCCAUGCACACGAUUUUGCAAUCUUUAGGUGGCUUUUAUCGUGCUUUGUUCAACAAAUUGCCAUAAUUUGCUGUAAAUUCCAACU-AGU-GUUGCCACUAGUGGUCCGCUC
..............((.((((((...((.(((....))).))....)))))).......((.(((((((...))))))).))......(((.((-(((-(....)))))))))...)).. ( -24.10)
>consensus
CAUUCCCUCUCCAUGCACAUGAUUUUGCAAUCUUUAGGCGGCUUCUAUCGUGCUUUGUUCAACAAAUUGCCAUAAUUUGUUGUAAAUUCCAAUCAAGUGGUUGCCACUAGUGGUUCGCAC
............((((.((((((...((..((....))..))....)))))).......((((((((((...))))))))))......(((....(((((...)))))..)))...)))) (-22.23 = -22.22 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 739,398 – 739,518
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.53
Mean single sequence MFE -29.35
Consensus MFE -23.10
Energy contribution -22.85
Covariance contribution -0.25
Combinations/Pair 1.19
Mean z-score -1.78
Structure conservation index 0.79
SVM decision value 0.33
SVM RNA-class probability 0.689888
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 739398 120 - 27905053
AUGCGAACCACUAGUGGCAACCACUUGAUUGGAAUUUACAACAAAUUAUGGCAAUUUGUUGAACAAAGUACGAUAAAAGCCGCCUAAAGGUGGCAAAAUCAUAUGCAUGGAGAAGAAAUG
(((((..(((..(((((...)))))....)))......(((((((((.....)))))))))..........(((....((((((....))))))...)))...)))))............ ( -30.60)
>DroSec_CAF1 6737 120 - 1
GUGCGAACCACUAGUGGCAACCACUUGAUUGGAAUUUACAACAAAUUAUGGCAAUUUGUUGAACAAAGCACGAUAGAAGCCGCCUAAAGAUUGCAAAAUCAUGUGCACGGAGAGGGAAUG
((((...(((..(((((...)))))....)))......(((((((((.....)))))))))......))))...........(((......((((........)))).....)))..... ( -27.20)
>DroSim_CAF1 6746 120 - 1
GUGCGAACCACUAGUGGCAACCACUUGAUUGGAAUUUACAACAAAUUAUGGCAAUUUGUUGAACAAAGCACGAUAGAAGCCGCCUAAAGAUUGCAAAAUCAUGUGCACGCAGAGGGAAUG
.((((..(((..(((((...)))))....)))......(((((((((.....)))))))))......(((((.(((.......)))..((((....)))).))))).))))......... ( -28.40)
>DroEre_CAF1 7172 118 - 1
GAGCGGACCACUAGUGGCAAC-ACU-AGUUGGAAUUUACAGCAAAUUAUGGCAAUUUGUUGAACAAAGCACGAUAAAAGCCACCUAAAGAUUGCAAAAUCGUGUGCAUGGAGAAGAAAUG
..((...(((((((((....)-)))-)).)))......(((((((((.....)))))))))......(((((((....((............))...))))))))).............. ( -31.20)
>consensus
GUGCGAACCACUAGUGGCAACCACUUGAUUGGAAUUUACAACAAAUUAUGGCAAUUUGUUGAACAAAGCACGAUAAAAGCCGCCUAAAGAUUGCAAAAUCAUGUGCACGGAGAAGAAAUG
(((((........(((((..(((......)))......(((((((((.....))))))))).................))))).....((((....))))...)))))............ (-23.10 = -22.85 +  -0.25)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:07 2006