Locus 5401

Sequence ID 3R_DroMel_CAF1
Location 14,195,690 – 14,195,810
Length 120
Max. P 0.533055
window8794

overview

Window 4

Location 14,195,690 – 14,195,810
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 73.08
Mean single sequence MFE -41.01
Consensus MFE -19.69
Energy contribution -19.47
Covariance contribution -0.22
Combinations/Pair 1.36
Mean z-score -1.65
Structure conservation index 0.48
SVM decision value -0.00
SVM RNA-class probability 0.533055
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14195690 120 + 27905053
AAAAUCCGCUGUAAAGGAAUAUGUGGCCGAGGCAGGAUAGUGACCGGGACUCAGCAGCGGUGGGUAUAGCACAUUUACCGCCGCUGCUGCUGCUGCCGCCGAGGUGGAGUUACUGGGUGG
...((((.((((...((.........))...))))...(((((((((.(..((((((((((((..............)))))))))))).).)))((((....)))).)))))))))).. ( -46.94)
>DroVir_CAF1 75892 102 + 1
AAAGUCAGCUGUAAAGGAAUAGGUGGCCGAGGCUGGAUAGUGCGUAGGACUCAAUAGCGGCGGAUAGAGCACAUUGACAGCCGCCG------------------AGGAGUUGCUCGGUGG
.....((.((((......)))).))((((((((........))....(((((.....((((((...((.....)).....))))))------------------..))))).)))))).. ( -32.70)
>DroWil_CAF1 64973 111 + 1
AAAAUCCGCCGUAAAUGAAUAGGUAGCCGAGGCGGGAUAAUGGGUGGGACUUAGUAGCGGCGGAUAGAGCACAUUUACCGCUGCU------GCAGCCGCC---GUGGAAUUAUUUGGCGG
.....(((((......((((((....(((.(((((.....((((.....))))((((((((((.((((.....))))))))))))------))..)))))---.)))..))))))))))) ( -45.30)
>DroMoj_CAF1 79690 102 + 1
AAAGUCGGCCGUGAAGGAGUAGGUGGCCGAGGCCGGAUAGUGCGUGGGACUCAGUAGCGGCGGAUAGAGCACAUUGACCGCCGCCG------------------AGGAGCUGUUCGGCGG
....(((((((............))))))).((((((((((........(((....(((((((.(((......))).))))))).)------------------))..)))))))))).. ( -41.30)
>DroAna_CAF1 62899 117 + 1
AAAGUCCGCCGUAAACGAGUAGGUAGCUGAGGCAGGAUAGUGGCCCGGACUUAGAAGUGGCGGAUAUAACACAUUAACCGCCGCCGC---AGCUGCCGCAGAAGUUGAGUUGCCGGGCGG
.....(((((...........((((((((.(((.((........))............(((((.((........)).)))))))).)---)))))))((((........))))..))))) ( -45.00)
>DroPer_CAF1 77765 99 + 1
GAAGUCCGCCGUGAAAGAGUAGGUGGCCGAGGCAGGGUAGUGGGUGGGACUCAGCAGCGGCGGGUAUAGCACAUUCACCGCCG---------------------AGGAACUGCUGGGUGG
....((((((.(....)....(.((.((......)).)).).))))))(((((((((((((((..............))))))---------------------.....))))))))).. ( -34.84)
>consensus
AAAGUCCGCCGUAAAGGAAUAGGUGGCCGAGGCAGGAUAGUGGGUGGGACUCAGUAGCGGCGGAUAGAGCACAUUGACCGCCGCCG__________________AGGAGUUGCUGGGCGG
.....(((((...............((....)).......................(((((((..............)))))))...............................))))) (-19.69 = -19.47 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:48 2006