Locus 3110

Sequence ID 3L_DroMel_CAF1
Location 9,017,510 – 9,017,620
Length 110
Max. P 0.543745
window4847

overview

Window 7

Location 9,017,510 – 9,017,620
Length 110
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 79.10
Mean single sequence MFE -37.40
Consensus MFE -25.67
Energy contribution -25.20
Covariance contribution -0.47
Combinations/Pair 1.40
Mean z-score -1.14
Structure conservation index 0.69
SVM decision value 0.02
SVM RNA-class probability 0.543745
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9017510 110 - 23771897
GAGCU-----C-ACUCAAACUUACAUGUCCGCUGCUGUCCAGUGUAUUGUUGGUCAGUUUGACCUUGUUGAAGAGCAAUGCCUGGGAUUGCCAAUGGGCACCGGUCGCCGGACUGU
(((..-----.-.)))......(((.((((((.(((((((((.((((((((((((.....)))).........)))))))))))))..((((....)))).)))).).)))))))) ( -38.40)
>DroVir_CAF1 78730 112 - 1
CAAGGG----CAAGCAGCACUUACAUGUCCGUUGCUGUCGAGUGUGUUGUUCGUCAGCUUGACCUUGUUGAAGAGCAGCGCCUGCGAUUGCCAGUGUGCGCCCGUUGCCGGGCUAU
((..((----((((((((((......))..))))))((((((.(((((((((.(((((........))))).))))))))))).))))))))..))...(((((....)))))... ( -47.30)
>DroGri_CAF1 58608 112 - 1
GACAGA----CAAAUAUCACUUACAUGUCCACUGUUGUCCAGUGUAUUAUUCGUCAGUUUGACCUUGUUGAAGAGCAGCGCCUGGGAUUGCCAGUGGGCGCCCGUUGCGGGGCUAU
......----................((((((((...(((((.((.......(((.....)))...((((.....))))))))))).....))))))))((((......))))... ( -33.70)
>DroWil_CAF1 79665 112 - 1
GAGAU---AGA-UUUAAAACUUACAUGUCCAUUGCUAUCUAAUGUGUUAUUGGUCAAUUUGACCUUGUUGAAGAGCAACGCCUGCGAUUGCCAAUGGGCUCCAGUGGCCGGACUAU
.....---...-..............(((((((((................((((.....))))..((((.....))))....))))).((((.(((...))).)))).))))... ( -25.70)
>DroMoj_CAF1 68557 114 - 1
CACAGGAU--CAAAUGUCACUUACGUGUCCAUUGCUGUCCAGUGUGUUGUUCGUCAAUUUGACCUUGUUGAAGAGCAGUGCCUGCGACUGCCAGUGGGCGCCCGUUGCCGGACUGU
.((((...--..............(((((((((((.((((((.(..((((((.(((((........))))).))))))..)))).))).).))))))))))(((....))).)))) ( -44.00)
>DroAna_CAF1 55342 108 - 1
GAGUU--------CUGUAACUUACAUGUCCAUUGCUGUCCAGGGUAUUGUUGGUGAGCUUGACUUUGUUGAAGAGCAGAGCCUGCGACUGCCAAUGGGCUCCUGUGGCCGGGCUAU
.((((--------(.((.((......(((((((((.(((((((.(.(((((..(.(((........))).)..)))))).)))).))).).))))))))....)).)).))))).. ( -35.30)
>consensus
GAGAG_____C_AAUAUAACUUACAUGUCCAUUGCUGUCCAGUGUAUUGUUCGUCAGUUUGACCUUGUUGAAGAGCAGCGCCUGCGAUUGCCAAUGGGCGCCCGUUGCCGGACUAU
..........................(((((((((.((((((.((((((((..(((((........)))))..))))))))))).))).).)))))))).((.......))..... (-25.67 = -25.20 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:44 2006