Locus 3535

Sequence ID X_DroMel_CAF1
Location 9,478,423 – 9,478,514
Length 91
Max. P 0.988023
window5788 window5789

overview

Window 8

Location 9,478,423 – 9,478,514
Length 91
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 75.74
Mean single sequence MFE -25.34
Consensus MFE -15.48
Energy contribution -16.73
Covariance contribution 1.25
Combinations/Pair 1.15
Mean z-score -1.81
Structure conservation index 0.61
SVM decision value 0.52
SVM RNA-class probability 0.766618
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9478423 91 + 22224390
------------CAGUUGUCAUUCGACUCAAA-AAAUUGUGAUUUUAAUUGACUUCAUAUCGGACAUCCGGGGUAA--------------AACAUCGUAUCGGAUAUCCUAUACAAAA
------------.(((((.....)))))....-....(((((..((....))..)))))..(((.((((((.....--------------.........)))))).)))......... ( -15.04)
>DroSec_CAF1 21651 117 + 1
AGUUGGGAAUGUCAAUUGUCAUGUGACUCGAAAAAGUUGUGAUU-UAAUUGACUUCAUGUCGGAUAUCCGGUGAAACAUCGAAGCAUCGAAGCAUCGUAUCGGACAUCCUAUACAAAA
.(((((((..((((((((((((..((((......))))))))).-.)))))))....((((.((((..(((((.....((((....))))..))))))))).))))))))).)).... ( -32.90)
>DroSim_CAF1 21867 109 + 1
AGUUGGGAAUGUCAAUUGUCAUGUGACUCGAAAAAGUUGUGAUU-UAAUUGACUUCAUGUCGGAUAUCCGGUGAAACAUCGA--------AGCAUCGUAUCGGACAUCCUAUACAAAA
.(((((((..((((((((((((..((((......))))))))).-.)))))))....((((.((((..(((((.........--------..))))))))).))))))))).)).... ( -29.00)
>DroEre_CAF1 21867 101 + 1
AGCUGUGAAAGUCAAUUGUCAUGUGGCUGAAAAAAAUUGUGACU-UAAUUGACUUCACAUCGGACAUCCUGUAAAAC----------------AUCCUAUCGGACAUCCUAUACGAAA
.(.((((((.((((((((....((.((...........)).)).-)))))))))))))).)(((..(((.(((....----------------....))).)))..)))......... ( -24.40)
>consensus
AGUUGGGAAUGUCAAUUGUCAUGUGACUCAAAAAAAUUGUGAUU_UAAUUGACUUCAUAUCGGACAUCCGGUGAAAC_____________AGCAUCGUAUCGGACAUCCUAUACAAAA
..........((((((((((((..((((......)))))))))...)))))))........((((.(((((((........................))))))).))))......... (-15.48 = -16.73 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 9,478,423 – 9,478,514
Length 91
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 75.74
Mean single sequence MFE -26.27
Consensus MFE -15.92
Energy contribution -17.11
Covariance contribution 1.19
Combinations/Pair 1.14
Mean z-score -2.37
Structure conservation index 0.61
SVM decision value 2.10
SVM RNA-class probability 0.988023
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9478423 91 - 22224390
UUUUGUAUAGGAUAUCCGAUACGAUGUU--------------UUACCCCGGAUGUCCGAUAUGAAGUCAAUUAAAAUCACAAUUU-UUUGAGUCGAAUGACAACUG------------
.((..(((.(((((((((..........--------------......))))))))).)))..))((((.((....(((......-..)))....)))))).....------------ ( -21.39)
>DroSec_CAF1 21651 117 - 1
UUUUGUAUAGGAUGUCCGAUACGAUGCUUCGAUGCUUCGAUGUUUCACCGGAUAUCCGACAUGAAGUCAAUUA-AAUCACAACUUUUUCGAGUCACAUGACAAUUGACAUUCCCAACU
...(((...(((((((((....((.((.((((....)))).)).))..))))))))).))).((((((((((.-..((...........))(((....)))))))))).)))...... ( -31.00)
>DroSim_CAF1 21867 109 - 1
UUUUGUAUAGGAUGUCCGAUACGAUGCU--------UCGAUGUUUCACCGGAUAUCCGACAUGAAGUCAAUUA-AAUCACAACUUUUUCGAGUCACAUGACAAUUGACAUUCCCAACU
...(((...(((((((((....((.((.--------.....)).))..))))))))).))).((((((((((.-..((...........))(((....)))))))))).)))...... ( -26.00)
>DroEre_CAF1 21867 101 - 1
UUUCGUAUAGGAUGUCCGAUAGGAU----------------GUUUUACAGGAUGUCCGAUGUGAAGUCAAUUA-AGUCACAAUUUUUUUCAGCCACAUGACAAUUGACUUUCACAGCU
.........((((((((..((((..----------------..))))..))))))))..(((((((((((((.-.((((..................))))))))))).))))))... ( -26.67)
>consensus
UUUUGUAUAGGAUGUCCGAUACGAUGCU_____________GUUUCACCGGAUAUCCGACAUGAAGUCAAUUA_AAUCACAACUUUUUCGAGUCACAUGACAAUUGACAUUCCCAACU
.(((((((.(((((((((..............................))))))))).)))))))(((((((....((...........))(((....)))))))))).......... (-15.92 = -17.11 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:51 2006