Locus 3388

Sequence ID 2R_DroMel_CAF1
Location 11,449,004 – 11,449,110
Length 106
Max. P 0.891269
window5538

overview

Window 8

Location 11,449,004 – 11,449,110
Length 106
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.90
Mean single sequence MFE -35.80
Consensus MFE -23.31
Energy contribution -24.45
Covariance contribution 1.14
Combinations/Pair 1.15
Mean z-score -2.44
Structure conservation index 0.65
SVM decision value 0.97
SVM RNA-class probability 0.891269
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11449004 106 + 20766785
CAAUGA-CCCGCUAUGGUGAAUCACCA-GAAGCGA--------GCGACACCAGCUCAG-GGUACUCACCGGCCAGUCCUUGAAAGUUACCAAGCGAUUGGCCUCCAACAAGAGAUCG
.....(-((((((.(((((...)))))-..)))((--------((.......)))).)-))).......((((((((((((........)))).))))))))............... ( -40.40)
>DroGri_CAF1 1082 102 + 1
--------------UGCGGAAUGAGCAUGAAGCGUUUCCAUCUCCGUCAUAAACUCU-AUAUACGAACUGGCCAAUCCUUGAACGUUUCCAGGCGAUUCGCUUCGAUGAGCAGAUCC
--------------...(((.((..(((((((((..(((.....(((.(((......-.))))))..((((..(((........))).))))).))..)))))).)))..))..))) ( -22.00)
>DroSec_CAF1 1409 106 + 1
CAAAGA-CCCGCUUUGGUGAAUCACCA-GAAGCGA--------GCGACACCAGCUCAG-GGUACUCACCGGCCAGUCCUUGAAAGUUACCAAGCGAUUGGCCUCCAACAAGAGAUCG
.....(-((((((((((((...)))))-).)))((--------((.......)))).)-))).......((((((((((((........)))).))))))))............... ( -41.00)
>DroSim_CAF1 1407 106 + 1
CAAAGU-CCCGCUUUGGUGAAUCACCA-GAAGCGA--------GCGACACCAGCUCAG-GGUACUCACCGGCCAGUCCUUGAAAGUUACCAAGCGAUUGGCCUCCAACAAGAGAUCG
...(((-((((((((((((...)))))-).)))((--------((.......)))).)-)).)))....((((((((((((........)))).))))))))............... ( -41.00)
>DroEre_CAF1 1443 107 + 1
CAAAGAGUCCGCUUUGGUGAAUCACCA-GAAGCAA--------GCGACACCAGGUCAG-AGUACUCACCGGCCAGUCCUUGAAGGUUUCCAAGCGAUUGGCCUCCAACAAGAGAUCG
....((((.((((((((((...)))))-).)))..--------..(((.....)))..-.).))))...((((((((((((........)))).))))))))............... ( -35.30)
>DroYak_CAF1 1417 107 + 1
CAAAGAGCACGCUUUGGUGAAUCACCA-GAAGCAA--------GCGACACCAGCUCAG-GGUACUCACCGGCCAGUCCUUGAAGGUUUCCAAGCGAUUGGCCUCCAACAAGAGAUCG
....((((..(((((((((...)))))-).)))..--------))........(((..-(((....)))((((((((((((........)))).))))))))........))).)). ( -35.10)
>consensus
CAAAGA_CCCGCUUUGGUGAAUCACCA_GAAGCGA________GCGACACCAGCUCAG_GGUACUCACCGGCCAGUCCUUGAAAGUUACCAAGCGAUUGGCCUCCAACAAGAGAUCG
..........(((.(((((...)))))...)))....................(((...(((....)))((((((((((((........)))).))))))))........))).... (-23.31 = -24.45 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:21 2006