Locus 6603

Sequence ID 3L_DroMel_CAF1
Location 17,548,051 – 17,548,158
Length 107
Max. P 0.570289
window10747

overview

Window 7

Location 17,548,051 – 17,548,158
Length 107
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 81.26
Mean single sequence MFE -27.74
Consensus MFE -19.44
Energy contribution -19.64
Covariance contribution 0.20
Combinations/Pair 1.29
Mean z-score -1.57
Structure conservation index 0.70
SVM decision value 0.07
SVM RNA-class probability 0.570289
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17548051 107 + 23771897
UCAAAUCAUAAUCACCGUCAACU-----GCAGCGAACUUGGCCCACUGAAUGUUGCCGUUGAGCCCGUCAAUUAGCGGCAGCAACAAGCA--GCGGUAAAAAAAAAAAAACAGC
.............((((....((-----((.((.......))........((((((((((((.........))))))))))))....)))--)))))................. ( -26.90)
>DroSec_CAF1 33975 97 + 1
UCGAAUCAUAAUCACCGUCAACU-----GCAGCGAACUUGGCCCACUGAAUGUUGCCGUUGAGCCCGUCAAUUAGCGGCAGCAAGAAACA--GCGGUAAAA-AAA---------
.............(((((.....-----.(((.(.........).)))..((((((((((((.........)))))))))))).......--)))))....-...--------- ( -24.30)
>DroSim_CAF1 36459 98 + 1
UCAAAUCAUAAUCACCGUCAACU-----GCAGCGAACUUGGCCCACUGAAUGUUGCCGUUGAGCCCGUCAAUUAGCGGCAGCAAGAAACA--GCGGUAAAAAAAA---------
.............(((((.....-----.(((.(.........).)))..((((((((((((.........)))))))))))).......--)))))........--------- ( -24.30)
>DroEre_CAF1 33763 100 + 1
UCAAAUCAUAAUCGCCGUCAACU-----GCAGCGAACUUGGCCCACUGAAUGUUGCCGUUGAGCCCGUCAAUUAGUGGCGGCCAGAAGCA--GCGGUAA-AAA------GCAGC
.....(((...((((.((.....-----)).))))...)))....(((....(((((((((.(.((((((.....)))))).).....))--)))))))-...------.))). ( -28.70)
>DroYak_CAF1 36915 99 + 1
UCAGAUCAUAAGCGCUGUCAACUUGGCCACAGCGAACUUGGCCCACUGAAUGCUGCC---------GUCAAUUAGCGGCAGCAGGAGGCAAAGUGGUAAAAAA------GCGGA
............(((((((((.((.((....)).)).)))))(((((...(((((((---------((......)))))))))........)))))......)------))).. ( -34.50)
>consensus
UCAAAUCAUAAUCACCGUCAACU_____GCAGCGAACUUGGCCCACUGAAUGUUGCCGUUGAGCCCGUCAAUUAGCGGCAGCAAGAAGCA__GCGGUAAAAAAAA_____C_G_
.............(((((...........(((.(.........).)))..((((((((((((.........)))))))))))).........)))))................. (-19.44 = -19.64 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:26 2006