Locus 7518

Sequence ID 3L_DroMel_CAF1
Location 20,204,649 – 20,204,753
Length 104
Max. P 0.908361
window12227

overview

Window 7

Location 20,204,649 – 20,204,753
Length 104
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 76.62
Mean single sequence MFE -36.00
Consensus MFE -26.05
Energy contribution -27.55
Covariance contribution 1.50
Combinations/Pair 1.16
Mean z-score -1.49
Structure conservation index 0.72
SVM decision value 1.06
SVM RNA-class probability 0.908361
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20204649 104 - 23771897
-----------AAUAAAGCUAA--CUAAACUCGUUGCAGCGCGGAAAUUAAGGAGCUGGGAAGCUCGGCCUCCAUGGUGACUCUGCGCAACGAGAGAUCGUCACCAGCGCGAUCUCU
-----------...........--......(((((((...(((((.((((.(((((((((...))))).)))).))))...))))))))))))((((((((.......)))))))). ( -38.40)
>DroSec_CAF1 18532 104 - 1
-----------AAUAACGCUAA--CUCAAUUCGUUGCAGCGCUGAAAUUAAGGAGCUGGGAAGCUCGGCCUCCAUGGUGACCCUGCGCAACGAGAGAUCGUCACCAGCGCGAUCUCU
-----------...........--......(((((((.(((.....((((.(((((((((...))))).)))).)))).....))))))))))((((((((.......)))))))). ( -36.00)
>DroSim_CAF1 13487 104 - 1
-----------AAUAAAGCUAA--CUCAUUUCGUUGCAGCGCUGAAAUCAAGGAGCUGGGAAGCUCGGCCUCCAUGGUGACCCUGCGCAACGAGAGAUCGUCACCAGCGCGAUCUCU
-----------...........--......(((((((.(((.....((((.(((((((((...))))).)))).)))).....))))))))))((((((((.......)))))))). ( -38.10)
>DroEre_CAF1 13779 115 - 1
GGAAGAGGAGAAAUAGAGCUAA--UUAUGUCCGUUGCAGCGCGGAAAUCAAGGAGCUGGGAAGCUCGGCCUCCAUGGUGACUCUGCGCAAUGAGAGAUCGUCACCAGCGCGAUCUCU
(((.((..((........))..--))...)))......(((((((.((((.(((((((((...))))).)))).))))...)))))))....(((((((((.......))))))))) ( -41.20)
>DroYak_CAF1 27101 110 - 1
-------UAAAGCUAAAGCUAAGCUAACAUCCGUUAUAGCGCCGAAAUCAAGGAGCUGGGAAGCUCGGCCUCCAUGGUGACUCUGCGCAACGAGAGAGCGUCACCAGUGCGAUGUCU
-------...((((.......)))).(((((((((...((((.((.((((.(((((((((...))))).)))).))))...)).)))))))).....(((.(....))))))))).. ( -32.30)
>DroPer_CAF1 8881 111 - 1
GACAGACGUAAAAU----CCAA--UGCUCUUUCCUGCAGAGAUCCCAUACCAGAGCUUGGUAGCUCGGCCUCAAUGCUGACGUUGCGGAAUGAGCGCUCCUCGCCAGCGCGAUCGCU
..............----....--.((((.((((.((((........((((((...))))))(.(((((......)))))).)))))))).))))((...((((....))))..)). ( -30.00)
>consensus
___________AAUAAAGCUAA__CUAAAUUCGUUGCAGCGCUGAAAUCAAGGAGCUGGGAAGCUCGGCCUCCAUGGUGACUCUGCGCAACGAGAGAUCGUCACCAGCGCGAUCUCU
...............................((((((.(((.....((((.(((((((((...))))).)))).)))).....)))))))))(((((((((.......))))))))) (-26.05 = -27.55 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:18 2006