Locus 9970

Sequence ID 3R_DroMel_CAF1
Location 26,688,630 – 26,688,724
Length 94
Max. P 0.851778
window15892

overview

Window 2

Location 26,688,630 – 26,688,724
Length 94
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.62
Mean single sequence MFE -15.94
Consensus MFE -12.22
Energy contribution -12.22
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.97
Structure conservation index 0.77
SVM decision value 0.79
SVM RNA-class probability 0.851778
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26688630 94 - 27905053
UAAAUUAUUAUCGAAAA------------AUAUAGCUCCGUCCCACUUGACGGGCUCACUUGUAAUCGAUUUGAUAUUUAGACCUC---------ACCUCCACUCAACU-----CGCCUU
(((((....(((((...------------(((.(((.(((((......))))))))....)))..))))).....)))))......---------..............-----...... ( -15.30)
>DroSec_CAF1 279379 92 - 1
UAAAUUAUUAUCGAAAA------------AUAUA-CCCCGUC-CACUUGACGGGCUCACUUGUAAUCGAUUUGAUAUUUAGACCUC---------ACCUCCACUCAACU-----CGCCUU
(((((....(((((...------------.....-.((((((-.....))))))...........))))).....)))))......---------..............-----...... ( -13.75)
>DroSim_CAF1 276154 92 - 1
UAAAUUAUUAUCGAAAA------------AUAUA-CCCCGUC-CACUUGACGGGCUCACUUGUAAUCGAUUUGAUAUUUAGACCUC---------ACCUCCACUCAACU-----CGCCUU
(((((....(((((...------------.....-.((((((-.....))))))...........))))).....)))))......---------..............-----...... ( -13.75)
>DroEre_CAF1 295326 95 - 1
UAAAUUAUUAUCGAAAA------------AUAUA--CCCGUC-CACUUGACGGGCUCACUUGUAAUCGAUUUGAUAUUUAGACCUC---------ACCUCCACUCAACUCAACU-GCCUU
(((((....(((((...------------.....--((((((-.....))))))...........))))).....)))))......---------...................-..... ( -13.31)
>DroYak_CAF1 284334 117 - 1
UAAAUUAUUAUCGAAAAUAUCGUAUACGAGUAUA--CCCGUC-CACUUGACGGGCUCACUUGUAAUCGAUUUGAUAUUUAGACCUCACCUACCUCACCUCCACUCAACUCAACUCGCCUU
........((((((....((((..(((((((...--((((((-.....))))))...)))))))..))))))))))............................................ ( -23.60)
>consensus
UAAAUUAUUAUCGAAAA____________AUAUA_CCCCGUC_CACUUGACGGGCUCACUUGUAAUCGAUUUGAUAUUUAGACCUC_________ACCUCCACUCAACU_____CGCCUU
(((((....(((((.......................(((((......)))))((......))..))))).....)))))........................................ (-12.22 = -12.22 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:46:02 2006