Locus 3965

Sequence ID X_DroMel_CAF1
Location 10,521,992 – 10,522,107
Length 115
Max. P 0.950939
window6519

overview

Window 9

Location 10,521,992 – 10,522,107
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.57
Mean single sequence MFE -28.62
Consensus MFE -15.80
Energy contribution -16.56
Covariance contribution 0.76
Combinations/Pair 1.21
Mean z-score -2.12
Structure conservation index 0.55
SVM decision value 1.41
SVM RNA-class probability 0.950939
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10521992 115 + 22224390
-----AGAGCUCAGGUGGCUCAUGAAAUCCUGGCUACCCAUCAAUUGCUGUCUAAGCAGCUGUUCUCAUCCUGGGAGCAGGUACAAAAAACGGCAAAAAAAAAAAAAAAAAACUUCAUUA
-----.(((....((((((.((.(....).))))))))......(((((((......(.((((((((.....)))))))).).......))))))).................))).... ( -28.92)
>DroSec_CAF1 53382 111 + 1
-----AGAGCUCAGGUGGCUCAUGAAAUCCUGGCUACCCAUCAAUUGCUGUCUAAGCAGCUGUUCUGAUCCUGGGAGCAGGUAUAAAAAA-GGUAAAAACA---AAAAAAAACUUCAUUA
-----.(((((.....)))))(((((..((((.((.(((((((...(((((....))))).....)))...)))))))))).........-.((....)).---.........))))).. ( -26.20)
>DroSim_CAF1 57002 110 + 1
-----AGAGCUCAGGUGGCUCAUGAAAUCCUGACUACCCAUCAAUUGCUGUCUAAGCAGCUGUUCUGAUCCUGGAAGCAGGUACAAAAAA-GGCAAAAACA---AAA-AAAACUUCAUUA
-----(((((...(((((.(((.(....).))))))))........(((((....))))).)))))...((((....)))).........-..........---...-............ ( -23.70)
>DroYak_CAF1 55484 109 + 1
-----CGAGCACAGGUGGCUCAUGAAAUCCCGGCUGCCCAUCAAUUGCUGUCUAAGCAGCUGCUCAGAUCCUGGGAGCAGGUUAAAAAAA-AAUAAU-----GAAACAAAAACUUCAUUA
-----.(((((..((..(((...........)))..))........(((((....))))))))))....((((....)))).........-..((((-----(((........))))))) ( -30.00)
>DroAna_CAF1 58665 107 + 1
CAGACAUGCCUCAGAUGGCUAAGGA--UUCU-GUUGGCCAUCAAUUUCUGUCUAAGCAGGUCCACCAUGCCACAGA--GGGUGGUGGCAA-GGUCGAAA-------CAAAAACUUCAUUA
..(((.((((((((((((((((.(.--...)-.)))))))))..(((((((....(((((....)).))).)))))--)).))).)))).-.)))(((.-------.......))).... ( -34.30)
>consensus
_____AGAGCUCAGGUGGCUCAUGAAAUCCUGGCUACCCAUCAAUUGCUGUCUAAGCAGCUGUUCUGAUCCUGGGAGCAGGUACAAAAAA_GGUAAAAA_A___AAAAAAAACUUCAUUA
......((((...((((((.............))))))........(((((....))))).))))....((((....))))....................................... (-15.80 = -16.56 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:04 2006