Locus 1579

Sequence ID 2R_DroMel_CAF1
Location 5,940,086 – 5,940,181
Length 95
Max. P 0.984717
window2645

overview

Window 5

Location 5,940,086 – 5,940,181
Length 95
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 71.33
Mean single sequence MFE -23.63
Consensus MFE -9.96
Energy contribution -9.80
Covariance contribution -0.16
Combinations/Pair 1.25
Mean z-score -2.26
Structure conservation index 0.42
SVM decision value 1.98
SVM RNA-class probability 0.984717
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5940086 95 + 20766785
AUAAAUCAAU--CAGUCCA--GAACC--AAUUCCUUCAGGAUCUAGUAU--------CAAAACAGCUGAUUUGAU-GCAGUUGACGGUUU-UGCCGGCUCCA---------AACAUAAAC
..........--.((((((--(((((--...(((....)))....((((--------((((.(....).))))))-)).......)))))-))..))))...---------......... ( -21.00)
>DroSec_CAF1 82131 95 + 1
AUAACCCAAU--CAGCCCA--GAUCC--AAUUCCUUUAGGAUCUGGUAU--------CAAAACAGCUGAUCCGGU-UCAGCUGUCAGUUU-UGCCGGCUUCA---------AACAUAAAC
..........--.((((.(--(((((--..........))))))((((.--------....((((((((......-))))))))......-))))))))...---------......... ( -28.80)
>DroSim_CAF1 79946 97 + 1
AUAGCCCAAUCCCAGUCCC--GAACC--AAUUCCUUCAGGAUCUAGUAU--------CAAAACAGCUGAUCUAAU-UCAGUUGACAGUUU-CGCCGGCUCCA---------AACAUAAAC
..((((........((((.--(((..--......))).)))).......--------.....(((((((......-))))))).......-....))))...---------......... ( -18.70)
>DroEre_CAF1 67475 95 + 1
AUAACCCAGU--CAGUACA--GAAUU--AUUUCCUUCAGGACCUGGCAU--------CCAAACAGCUGAUCUGGC-CCAGCUGACAGUUU-AGCCGGUUCCA---------AACAUAAAC
..........--.......--.....--..........(((.(((((..--------.....((((((.......-.)))))).......-.))))).))).---------......... ( -20.96)
>DroAna_CAF1 77321 116 + 1
AUAAUUCCGA--CUGUCCAAAGAAGCAGAAUCCCUUCAGGAUUAAUUUUGCAGGAGGUGGAACAGCUGAUCCGGCUCCAGCUGA--GUUUCUUCCGGCUCCACCAACAAAAAUUAUAAAC
.....(((..--((......))..(((((((((.....))))....))))).)))((((((.((((((.........)))))).--(((......)))))))))................ ( -28.70)
>consensus
AUAACCCAAU__CAGUCCA__GAACC__AAUUCCUUCAGGAUCUAGUAU________CAAAACAGCUGAUCUGGU_CCAGCUGACAGUUU_UGCCGGCUCCA_________AACAUAAAC
..............(((..............(((....))).....................((((((.........))))))............)))...................... ( -9.96 =  -9.80 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:58 2006