Locus 2138

Sequence ID 3R_DroMel_CAF1
Location 6,109,546 – 6,109,640
Length 94
Max. P 0.636650
window3490

overview

Window 0

Location 6,109,546 – 6,109,640
Length 94
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 76.16
Mean single sequence MFE -22.56
Consensus MFE -6.80
Energy contribution -7.80
Covariance contribution 1.00
Combinations/Pair 1.22
Mean z-score -1.80
Structure conservation index 0.30
SVM decision value 0.21
SVM RNA-class probability 0.636650
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6109546 94 + 27905053
UUAGCAUUCAUUUGUGUUUACAAUCAACGGAAUUGUGAAAAGCUAUAGAUGAGAAUUUCCAGAAAUG---------------AAAUUCUACUUUAUUAGUCUAAAUAAC
(((((..((((((((((((((((((....).))))))))....)))))))))(((((((.(....))---------------))))))..........).))))..... ( -18.00)
>DroSec_CAF1 21632 109 + 1
UUGGCAUUCAUUUGUGUUUACAAUCAACGGAAUUCUGAAAAGCUCUAGCUGAGAAUUUCCAGAAAUGAGUUAAAUGGAUUCGAAAUUCCAUUUUAUUAGCCUAAAUAAC
..(((((((((((.((............((((((((....(((....))).)))))))))).)))))))).(((((((........))))))).....)))........ ( -26.10)
>DroSim_CAF1 22236 109 + 1
UUGGCAUUCAUUUGUGUUUACAAUCAACGGAAUUCUGAAAAGCUAUAGCUGAGAAUUUCCAGAAAUGAGUUAAAUGGAUUGGAAAUUCCAUUUUAUUAGCCUAAAUAAC
..(((((((((((.((............((((((((....(((....))).)))))))))).)))))))).(((((((.(....).))))))).....)))........ ( -26.70)
>DroEre_CAF1 22038 96 + 1
UUGGCAUUCAUUUGUGUUUACAGUCAACGGAAUUCUGAA-AGUUGUAGCU-AGAAUU-CCAGCAA----------CGAUUCGAGAUUCUACUUUAUAAGCCUAAAUUAC
..(((......((((....)))).....(((((..(((.-.(((((.(((-.(....-).))).)----------)))))))..))))).........)))........ ( -18.30)
>DroYak_CAF1 22428 100 + 1
UUGGCAUUCAGUUGUGUUUACAAUCAACGGAAUUCUGACGAGUAAU------GACUU-UCGACGG--CGUAAAAUGGAUUUAGAAUUCUAUUUUAUGAGCCCAAAUUAG
..(((.....((((.(((.....((..(((....)))..)).....------)))..-.))))..--(((((((((((........))))))))))).)))........ ( -23.70)
>consensus
UUGGCAUUCAUUUGUGUUUACAAUCAACGGAAUUCUGAAAAGCUAUAGCUGAGAAUUUCCAGAAAUG_GU_AAAUGGAUUCGAAAUUCUAUUUUAUUAGCCUAAAUAAC
..(((......((((....)))).....((((((((....(((....))).)))))).))......................................)))........ ( -6.80 =  -7.80 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:20 2006