Locus 4309

Sequence ID 3L_DroMel_CAF1
Location 12,652,319 – 12,652,409
Length 90
Max. P 0.999467
window6666

overview

Window 6

Location 12,652,319 – 12,652,409
Length 90
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 72.82
Mean single sequence MFE -28.50
Consensus MFE -14.14
Energy contribution -17.54
Covariance contribution 3.40
Combinations/Pair 1.29
Mean z-score -2.87
Structure conservation index 0.50
SVM decision value 3.63
SVM RNA-class probability 0.999467
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12652319 90 - 23771897
U-CCUCAUCCUCA--UCCACACUU-------CACUCCUCCCCUUUCGCGCGGACGAGGAGAAGCCCUCGUUUGCUGGAUAGGAGGAGACUCGUCAUCUUU
.-...........--.........-------..(((((((...((((.((((((((((......))))))))))))))..)))))))............. ( -32.50)
>DroSec_CAF1 16646 90 - 1
U-CCUCCUUCUCA--UCCUCACUU-------CACUCCUACCCUUUCACGCGGACGAGGAGAAGCCCUCGUUUGCUGGAUAGGAGGAGGCUCGUCAUCUUU
.-(((((((((.(--(((......-------.................((((((((((......)))))))))).)))))))))))))............ ( -32.25)
>DroSim_CAF1 16528 90 - 1
U-CCUCAUCCUCA--UCCUCACUU-------CACUCCUACCCUUCCACGCGGACGAGGAGAAGCCCUCGUUUGCUGGAUAGGAGGAGGCUCGUCAUCUUU
.-...........--.........-------..(((((.((..((((.((((((((((......))))))))))))))..)))))))............. ( -34.00)
>DroEre_CAF1 16778 97 - 1
UGCCCCUUCCACACUUCCACACUUCCUCCCUCAUUCCUCCCUCUCCACGGGGCCCAGUAGAAGCCCUCGUUUGGUGGCUAGGA---GGCGCGUCAUCUUU
.((((((.((((.((((...(((...((((..................))))...))).))))..(......)))))..))).---)))........... ( -20.27)
>DroYak_CAF1 16659 87 - 1
UGCCCCUGCCACAC--------UUCCUCCCUUU-UCACUUCUCUCCAAC-GGCCCAGUAGAAGUCCGAGUUUGGUGGCCAGGA---GGCUCGUCAUCUUU
.(((((((((((.(--------...(((.....-..((((((((((...-))...)).))))))..)))...))))).)))).---)))........... ( -23.50)
>consensus
U_CCUCAUCCUCA__UCCACACUU_______CACUCCUACCCUUCCACGCGGACGAGGAGAAGCCCUCGUUUGCUGGAUAGGAGGAGGCUCGUCAUCUUU
.................................(((((((...((((.((((((((((......))))))))))))))..)))))))............. (-14.14 = -17.54 +   3.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:11 2006