Locus 1358

Sequence ID 3R_DroMel_CAF1
Location 3,998,719 – 3,998,834
Length 115
Max. P 0.542298
window2229

overview

Window 9

Location 3,998,719 – 3,998,834
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 89.82
Mean single sequence MFE -26.08
Consensus MFE -20.51
Energy contribution -21.07
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.45
Structure conservation index 0.79
SVM decision value 0.02
SVM RNA-class probability 0.542298
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3998719 115 - 27905053
AAUCACCGGAAA-----AAAGUUGGAGCCAACGGCAAACAGCAAAAGCAACUUGUCAGCGAAGAACUGCAAAACACUUCGCGCAAUCACUUCAAACGCUGCCUUUGAGUGACCAAAUUUG
..((((((((..-----...((((....))))((((....((....))...((((..((((((............)))))))))).............)))))))).))))......... ( -25.20)
>DroSec_CAF1 4386 115 - 1
ACUCACCGGAAA-----AAAGUUGGAGCCAACGGCAAACAGCAAAAGCAACUUGUCAGCGAAGAACUGCAAAACACUUCGCGCAAUCACUCCAAACGCUGCCUUUGAGUGACCAAAUUUG
(((((..((...-----....((((((.....(((((...((....))...))))).((((((............)))))).......))))))......))..)))))........... ( -28.92)
>DroSim_CAF1 4426 116 - 1
ACUCACCGGAAAA----AAAGUUGGAGCCAACGGCAAACAGCAAAAGCAACUUGUCAGCGAAGAACUGCAAAACACUUCGCGCAAUCACUUCAAACGCUGCCUUUGAGUGACCAAAUUUG
(((((..((....----....((((((.....(((((...((....))...))))).((((((............)))))).......))))))......))..)))))........... ( -25.44)
>DroYak_CAF1 4055 113 - 1
AGUCACUGGGAAAAAAAAACGAUGAAGCG------AAACAGCAAGAGCAACUUCUCAGCGAGGAACUG-AAAACACUUCGCGCAAUCACUUCAAACGCUGCCUUUGAGUGACCAAAUUUG
.((((((.(((...........(((((.(------(....((..(((......))).((((((.....-......))))))))..)).))))).........))).))))))........ ( -24.75)
>consensus
ACUCACCGGAAA_____AAAGUUGGAGCCAACGGCAAACAGCAAAAGCAACUUGUCAGCGAAGAACUGCAAAACACUUCGCGCAAUCACUUCAAACGCUGCCUUUGAGUGACCAAAUUUG
.......((.................((....(((((...((....))...))))).((((((............))))))))..(((((.((((.......)))))))))))....... (-20.51 = -21.07 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:54 2006