Locus 963

Sequence ID 3L_DroMel_CAF1
Location 2,862,705 – 2,862,815
Length 110
Max. P 0.905559
window1480 window1481

overview

Window 0

Location 2,862,705 – 2,862,815
Length 110
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 84.34
Mean single sequence MFE -32.24
Consensus MFE -21.18
Energy contribution -22.42
Covariance contribution 1.24
Combinations/Pair 1.05
Mean z-score -2.54
Structure conservation index 0.66
SVM decision value 1.04
SVM RNA-class probability 0.905559
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2862705 110 + 23771897
AAUGAAGGAGCAAACAUAAAAUGUAUCGAACAAGUUCGUGCUCGAAGCGAACAGGUUCAUGUUCGCAUCGAACCAAUGCGGGCUCCACUCGAACUUA--------AGAAUACAACAAG
......(((((...(((.....(((.((((....)))))))((((.(((((((......))))))).))))....)))...)))))...........--------............. ( -31.60)
>DroSec_CAF1 107411 110 + 1
AAUGAAGGAGCAAACAUAAAAUGUAUCGAACAAGUUCGUGUUCGAAGCGAGCUGGUUCAUGUUCGCAUCGAACCAGUGCGGCCUACAAUCGAACUUG--------AGAAUACAACAAG
..((.(((.((..........(((.(((((((......))))))).))).(((((((((((....))).))))))))))..))).))......((((--------.........)))) ( -31.60)
>DroSim_CAF1 98112 110 + 1
AAUGAAGGAGCAAACAUAAAAUGUAUCGAACAAGUUCGUGUUCGAAGCGAGCUGGUUCAUGUUCGCAUCGAACCAGUGCGGCCUACAAUCGAACUUG--------AGAAUACAACAAG
..((.(((.((..........(((.(((((((......))))))).))).(((((((((((....))).))))))))))..))).))......((((--------.........)))) ( -31.60)
>DroEre_CAF1 111089 118 + 1
AAUGAAGGAGGCAACAUAAAAUGUAUCGAACAAGUUCGCGUUCGCAGCGAGCAGGUUCAUGUUCGCAUCGAACCACCUCGGACGCCAAUCGAACUUGCAUUAAAAAGAACAAAACCAG
......((.(....)....((((((((((....(((((.(((((..(((((((......)))))))..))))).....))))).....))))...)))))).............)).. ( -30.60)
>DroYak_CAF1 112799 118 + 1
AAUGAAGGAGGCAACAUAAAAUGUGUCGAACACGUUCGCGUUCGAAGCGAGCUGGUUCAUGUUCGCAUCGAACCAGCACUGCGUCCCAUCGAACUGAAGUGAAAAAGAACCAAACGAG
..(((.(((.(((........(((.((((((.(....).)))))).))).(((((((((((....))).))))))))..))).)))..)))........................... ( -35.80)
>consensus
AAUGAAGGAGCAAACAUAAAAUGUAUCGAACAAGUUCGUGUUCGAAGCGAGCUGGUUCAUGUUCGCAUCGAACCAGUGCGGCCUCCAAUCGAACUUG________AGAAUACAACAAG
..............................((((((((.((((((.((((((........)))))).))))))......(.....)...))))))))..................... (-21.18 = -22.42 +   1.24)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,862,705 – 2,862,815
Length 110
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 84.34
Mean single sequence MFE -33.13
Consensus MFE -20.78
Energy contribution -21.74
Covariance contribution 0.96
Combinations/Pair 1.21
Mean z-score -2.26
Structure conservation index 0.63
SVM decision value 0.48
SVM RNA-class probability 0.754391
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2862705 110 - 23771897
CUUGUUGUAUUCU--------UAAGUUCGAGUGGAGCCCGCAUUGGUUCGAUGCGAACAUGAACCUGUUCGCUUCGAGCACGAACUUGUUCGAUACAUUUUAUGUUUGCUCCUUCAUU
.....((((((..--------((((((((.((((...))))....((((((.(((((((......))))))).)))))).))))))))...))))))..................... ( -36.80)
>DroSec_CAF1 107411 110 - 1
CUUGUUGUAUUCU--------CAAGUUCGAUUGUAGGCCGCACUGGUUCGAUGCGAACAUGAACCAGCUCGCUUCGAACACGAACUUGUUCGAUACAUUUUAUGUUUGCUCCUUCAUU
.....((((((..--------((((((((.(((.((((.(..(((((((.(((....))))))))))..))))))))...))))))))...))))))..................... ( -30.60)
>DroSim_CAF1 98112 110 - 1
CUUGUUGUAUUCU--------CAAGUUCGAUUGUAGGCCGCACUGGUUCGAUGCGAACAUGAACCAGCUCGCUUCGAACACGAACUUGUUCGAUACAUUUUAUGUUUGCUCCUUCAUU
.....((((((..--------((((((((.(((.((((.(..(((((((.(((....))))))))))..))))))))...))))))))...))))))..................... ( -30.60)
>DroEre_CAF1 111089 118 - 1
CUGGUUUUGUUCUUUUUAAUGCAAGUUCGAUUGGCGUCCGAGGUGGUUCGAUGCGAACAUGAACCUGCUCGCUGCGAACGCGAACUUGUUCGAUACAUUUUAUGUUGCCUCCUUCAUU
..(((..(((..........(((((((((.((.(((..((((..(((((.(((....))))))))..)))).))).))..)))))))))............)))..)))......... ( -31.55)
>DroYak_CAF1 112799 118 - 1
CUCGUUUGGUUCUUUUUCACUUCAGUUCGAUGGGACGCAGUGCUGGUUCGAUGCGAACAUGAACCAGCUCGCUUCGAACGCGAACGUGUUCGACACAUUUUAUGUUGCCUCCUUCAUU
.(((.((((............))))..))).((((.((((.((((((((.(((....))))))))))).)(..((((((((....))))))))..).........))).))))..... ( -36.10)
>consensus
CUUGUUGUAUUCU________CAAGUUCGAUUGGAGGCCGCACUGGUUCGAUGCGAACAUGAACCAGCUCGCUUCGAACACGAACUUGUUCGAUACAUUUUAUGUUUGCUCCUUCAUU
............................((..((((((.(.((((((((.(((....))))))))))).)(..(((((((......)))))))..).......))))))....))... (-20.78 = -21.74 +   0.96)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:29 2006