Locus 5070

Sequence ID X_DroMel_CAF1
Location 13,262,840 – 13,262,953
Length 113
Max. P 0.615676
window8239

overview

Window 9

Location 13,262,840 – 13,262,953
Length 113
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 84.08
Mean single sequence MFE -19.78
Consensus MFE -15.42
Energy contribution -15.70
Covariance contribution 0.28
Combinations/Pair 1.07
Mean z-score -1.61
Structure conservation index 0.78
SVM decision value 0.17
SVM RNA-class probability 0.615676
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13262840 113 - 22224390
CCCCCGCCCCCUUCCACUGCCACCCACCUCAAAACGUAAUUAAUGGAAGCGCACUUAAAUCAUUUUCGUGUGCGUGGGUCCCGAAAAUUCCCAACAGCUCCCAUCAAAAAAAA----
..(((((....(((((...........................)))))((((((.............)))))))))))...................................---- ( -17.65)
>DroSec_CAF1 8473 109 - 1
CCACCGC-CCCUUCCACUGCCACCCACCUCAAAACGUAAUUAAUGGAAGCGCACUUAAAUCAUUUUCGUGUGCGUGGGUCCCGAAAAUUCCCAACAGCUCCCACCAAAA-A------
.......-.............((((((.......(((.....)))...((((((.............))))))))))))..............................-.------ ( -17.12)
>DroSim_CAF1 8816 110 - 1
CCACCGC-CCCUUCCACAGCCGCCCACCUCAAAACGUAAUUAAUGGAAGCGCACUUAAAUCAUUUUCGUGUGCGUGGGUCCCGAAAAUUCCCAACAGCUCCCAUCAAAAAA------
.......-..........(..((((((.......(((.....)))...((((((.............))))))))))))..).............................------ ( -17.52)
>DroEre_CAF1 10506 117 - 1
ACCCCGCCCCCCUCCACUGCCACCCACCUCAAAACGUAAUUAAUGGAAGCGCACUUAAAUCAUUUUCGUGUGCGUGGGCCCCAAAAUGCCCCAACAGCUUCCGUAAAAGAACAUAUA
..........................................((((((((((((...............))))(.((((........)))))....))))))))............. ( -24.16)
>DroYak_CAF1 8886 100 - 1
----CGCCCACCUU--------UCCAACUCGAAACGUAAUUAAUGGAAGCGCACUUAAAUCAUUUUCGUGUGCGUGGGCCCCAAA-UUUCCCAACAGCUUCCCUCAAAAAAAA----
----.((((((..(--------((((.................)))))((((((.............))))))))))))......-...........................---- ( -22.45)
>consensus
CCACCGCCCCCUUCCACUGCCACCCACCUCAAAACGUAAUUAAUGGAAGCGCACUUAAAUCAUUUUCGUGUGCGUGGGUCCCGAAAAUUCCCAACAGCUCCCAUCAAAAAA_A____
..........................................((((.(((((((...............)))).((((...........))))...))).))))............. (-15.42 = -15.70 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:18 2006