Locus 3401

Sequence ID 2R_DroMel_CAF1
Location 11,512,483 – 11,512,603
Length 120
Max. P 0.660015
window5555

overview

Window 5

Location 11,512,483 – 11,512,603
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.94
Mean single sequence MFE -41.16
Consensus MFE -28.25
Energy contribution -28.50
Covariance contribution 0.25
Combinations/Pair 1.36
Mean z-score -2.51
Structure conservation index 0.69
SVM decision value 0.27
SVM RNA-class probability 0.660015
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11512483 120 + 20766785
AACGGAGGUGGAUAGUCAAUCUCGCCCCAUUUGGGACGGCAGAUGAAAUCAGCUGUCGAAUCCAACUUGGCCGCCAAAUCCAAGAUGUACAAAUUGUCGGCUGUCACCACCAGAGGGUUA
...((.((((.((((((........(((....))).((((((.((....)).))))))....((.(((((.........))))).))...........)))))))))).))......... ( -34.90)
>DroVir_CAF1 5089 120 + 1
AAGGGCGGCGGAUAAUCAAUUUCGCCCCAUUUCGGACGACAUAUGAAAUCAGCAGUCGAGUCCAGCUUGGCUGCCAGAUCCAAUAUGUACAGAUUAUCGGCUGUCACCACAAGCGGAUUG
...((((((.(((((((.....((.((......)).))((((((...(((.(((((((((.....)))))))))..)))...))))))...))))))).)))))).((......)).... ( -44.00)
>DroGri_CAF1 5312 120 + 1
AAUGGCGGCGGAUAAUCAAUUUCGCCCCAAUUUGGACGGCAUAUGAAAUCGGCAGUCGAGUCCAGCUUGGCUGCCAAAUCCAAUAUGUACAAAUUAUCGGCGGUCACGACCAAUGGAUUU
...((.((((((........))))))))((((((....((((((......((((((((((.....)))))))))).......)))))).))))))...((((....)).))......... ( -42.12)
>DroWil_CAF1 6686 120 + 1
AAUGGUGGUGGAUAAUCGAUUUCUCCCCACUUGGGACGGCAUAUGAAAUCGGCAGUUGAAUCCAAUUUGGCUGCCAAAUCCAAUAUAUACAGAUUGUCGGCUGUUACCACAACAGGGUUA
..(((..((.(((((((((((((((((.....))))........))))))((((((..(((...)))..))))))................))))))).))..)))((......)).... ( -38.90)
>DroMoj_CAF1 5043 120 + 1
AAUGGUGGUGGAUAAUCAAUUUCACCCCACUUUGGGCGGCAUAUGAAGUCAGCAGUCGAGUCCAGCUUGGCUGCCAAAUCCAAUAUGUACAAAUUAUCGGCCGUCACCACGAGCGGAUUG
..(((.((((((........))))))))).((((....((((((.......(((((((((.....)))))))))........)))))).))))..(((.(((((....))).)).))).. ( -38.16)
>DroAna_CAF1 4499 120 + 1
AAAGGCGGCGGAUAGUCGAUUUCUCCCCACUUGGGUCGGCAAAUGAAGUCGGCGGUGGAGUCCAACUUGGCCGCCAAAUCCAAGAUAUAGAGAUUGUCGGCCGUCACCACAAGAGGAUUA
...((((((.(((((((((....))....(((((((.(((.......)))((((((.(((.....))).))))))..))))))).......))))))).)))))).((......)).... ( -48.90)
>consensus
AAUGGCGGCGGAUAAUCAAUUUCGCCCCACUUGGGACGGCAUAUGAAAUCAGCAGUCGAGUCCAACUUGGCUGCCAAAUCCAAUAUGUACAAAUUAUCGGCUGUCACCACAAGAGGAUUA
...((.((((((........))))))))...(((((((((...((....))(((((((((.....))))))))).........................)))))).)))........... (-28.25 = -28.50 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:37 2006