Locus 1789

Sequence ID 3R_DroMel_CAF1
Location 5,117,252 – 5,117,355
Length 103
Max. P 0.599798
window2947

overview

Window 7

Location 5,117,252 – 5,117,355
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.50
Mean single sequence MFE -37.56
Consensus MFE -27.45
Energy contribution -28.28
Covariance contribution 0.83
Combinations/Pair 1.09
Mean z-score -1.64
Structure conservation index 0.73
SVM decision value 0.13
SVM RNA-class probability 0.599798
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5117252 103 - 27905053
AUGUCAGUAAGCCACAUGCGCUUGGAUUUUGACUUGUUCUCGCAUUUCGGGCAACUGUCGAAAAGGCCAACUGCCA-----------------ACCGAAUGGAUGGCGGCCAGCUGGUCA
.(((((((..(((.(((.((.((((.(((((((..(((((((.....)))).))).))))))).(((.....))).-----------------.)))).)).)))..)))..))))).)) ( -34.80)
>DroSec_CAF1 18844 120 - 1
AUGUCAGUAAGCCACAUGCGCUUGGAUUUGGACUUGUUCUCGCAUUUCGGCCAACAGUCGAAAAUGCCAACUGCCAUCAAAUAUGAGCAGCUAGCCGAAUGGAUGGCGGUCAGCUGGUCA
(((.((((((((((.((.(....).)).))).)))......((((((((((.....)))).))))))..)))).)))......(((.(((((..(((.........)))..))))).))) ( -35.50)
>DroSim_CAF1 19413 120 - 1
AUGUCAGUAAGCCACAUGCGCUUGGAUUUUGACUUGUUCUCGCAUUUCGGGCAACAGUCGAAAAUGCCAACUGCCAUCAAAUAUGAGCAGCUAGCCGAAUGGAUGGCGGUCAGCUGGUCA
(((.(((((((((....).))))((.((((((((.(((((((.....)))).)))))))))))...)).)))).)))......(((.(((((..(((.........)))..))))).))) ( -38.60)
>DroEre_CAF1 20334 119 - 1
AAGUCAGUUAGCCACAUGCGCU-GGAUUUCGACUUGUUCUCGCAUUCGGGGCAACAGUCGAAAAGGCCAACUGCCAUCAAAAAUGAGCAGCUGGCCAAAUGGAUGGCGGCCAGCUGGUCA
..(((((((.(((.(((.((..-...(((((((((((((.((....)))))))..)))))))).(((((.(((((((.....))).)))).)))))...)).)))..))).)))))).). ( -47.00)
>DroYak_CAF1 20285 101 - 1
AUGUCAGUAAGCCACAUGCGCUUGGAUUUCGACUUGUUCUCGGAUUUGGGGCAACAGUCGAAAAGGCCAACUGCCAUCAAAUAUGAG-------------------CGGCCAGCUGGUCA
.......((((((....).)))))..((((((((.((((((.......))).))))))))))).(((((.(((((.(((....))).-------------------.)).))).))))). ( -31.90)
>consensus
AUGUCAGUAAGCCACAUGCGCUUGGAUUUCGACUUGUUCUCGCAUUUCGGGCAACAGUCGAAAAGGCCAACUGCCAUCAAAUAUGAGCAGCU_GCCGAAUGGAUGGCGGCCAGCUGGUCA
..((((((..(((....(((.((((.((((((((.((((((.......))).)))))))))))...)))).)))...................((((......)))))))..))))).). (-27.45 = -28.28 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:33 2006