Locus 2100

Sequence ID 3R_DroMel_CAF1
Location 5,986,360 – 5,986,466
Length 106
Max. P 0.915586
window3434 window3435

overview

Window 4

Location 5,986,360 – 5,986,466
Length 106
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 90.09
Mean single sequence MFE -20.65
Consensus MFE -16.73
Energy contribution -17.23
Covariance contribution 0.50
Combinations/Pair 1.08
Mean z-score -2.19
Structure conservation index 0.81
SVM decision value 1.10
SVM RNA-class probability 0.915586
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5986360 106 + 27905053
UAACAUCUUCCUCUUUAGGAAAGUCUUGUUUUUCCUGAAGACAUUGUUUUUCCACCAAAAAAUUUGGUAUCAUUAGGAUUUCACUUUUCAUUUUACUGGAUGUUUC
.((((((((((((((((((((((......))))))))))))............(((((.....))))).......)))...................))))))).. ( -23.90)
>DroSec_CAF1 14984 106 + 1
UAACAUCUUCCUCUUUGGGAAAGUCUUGUUUUUCCUGAAGACAUUUUUCUUGCACCAAAAAAUUCGGUAUCAUUAGGAUUUCACUUUUCAUUCUACUGGAUGUUUC
.((((((....((((..((((((......))))))..))))............(((.........)))..((.((((((..........)))))).)))))))).. ( -21.30)
>DroEre_CAF1 21827 106 + 1
CAAUAUGUUCCUCUUUAAGAAAGUCUUGUUUUUCCUGAAGACAUUGUUCUUCCACCAACAAAUUUGGUAUCAUUAGGAUUUCACCUUCCAUUCUACUGGAUGUUAC
...........((((((.(((((......))))).)))))).........((((((((.....))))).......(((........)))........)))...... ( -17.00)
>DroYak_CAF1 15473 106 + 1
CAAUAUGUUCCUCUUUGAGAAAUUCUUGUUUUUCCUGAAGACAUUGUUCUGCCACCAACAAAUUUGGUAUCAUUAGGAUUUCACCUUCCAUUCUACUGGAGGUAAC
..................(((((((((((((((...)))))))..........(((((.....)))))......))))))))((((.(((......)))))))... ( -20.40)
>consensus
CAACAUCUUCCUCUUUAAGAAAGUCUUGUUUUUCCUGAAGACAUUGUUCUUCCACCAAAAAAUUUGGUAUCAUUAGGAUUUCACCUUCCAUUCUACUGGAUGUUAC
........(((((((((((((((......))))))))))))............(((((.....))))).......)))........((((......))))...... (-16.73 = -17.23 +   0.50)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 5,986,360 – 5,986,466
Length 106
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 90.09
Mean single sequence MFE -21.35
Consensus MFE -15.01
Energy contribution -15.57
Covariance contribution 0.56
Combinations/Pair 1.09
Mean z-score -1.76
Structure conservation index 0.70
SVM decision value 0.01
SVM RNA-class probability 0.536360
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5986360 106 - 27905053
GAAACAUCCAGUAAAAUGAAAAGUGAAAUCCUAAUGAUACCAAAUUUUUUGGUGGAAAAACAAUGUCUUCAGGAAAAACAAGACUUUCCUAAAGAGGAAGAUGUUA
..((((((((......))..........(((......((((((.....))))))...........((((.((((((........)))))).))))))).)))))). ( -21.40)
>DroSec_CAF1 14984 106 - 1
GAAACAUCCAGUAGAAUGAAAAGUGAAAUCCUAAUGAUACCGAAUUUUUUGGUGCAAGAAAAAUGUCUUCAGGAAAAACAAGACUUUCCCAAAGAGGAAGAUGUUA
..((((((((......))..........(((...((.((((((.....)))))))).........((((..(((((........)))))..))))))).)))))). ( -20.00)
>DroEre_CAF1 21827 106 - 1
GUAACAUCCAGUAGAAUGGAAGGUGAAAUCCUAAUGAUACCAAAUUUGUUGGUGGAAGAACAAUGUCUUCAGGAAAAACAAGACUUUCUUAAAGAGGAACAUAUUG
....(.((((......)))).)(((...((((.....((((((.....))))))(((((......)))))))))...........(((((....)))))))).... ( -20.00)
>DroYak_CAF1 15473 106 - 1
GUUACCUCCAGUAGAAUGGAAGGUGAAAUCCUAAUGAUACCAAAUUUGUUGGUGGCAGAACAAUGUCUUCAGGAAAAACAAGAAUUUCUCAAAGAGGAACAUAUUG
.(((((((((......))).))))))..(((...((.((((((.....)))))).))........((((..(((((........)))))..)))))))........ ( -24.00)
>consensus
GAAACAUCCAGUAGAAUGAAAAGUGAAAUCCUAAUGAUACCAAAUUUGUUGGUGGAAGAACAAUGUCUUCAGGAAAAACAAGACUUUCCCAAAGAGGAACAUAUUA
......((((......))))........(((......((((((.....))))))...........((((.((((((........)))))).)))))))........ (-15.01 = -15.57 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:25 2006