Locus 87

Sequence ID 3L_DroMel_CAF1
Location 328,100 – 328,204
Length 104
Max. P 0.917482
window123

overview

Window 3

Location 328,100 – 328,204
Length 104
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 69.01
Mean single sequence MFE -25.98
Consensus MFE -6.26
Energy contribution -7.43
Covariance contribution 1.17
Combinations/Pair 1.21
Mean z-score -2.54
Structure conservation index 0.24
SVM decision value 1.11
SVM RNA-class probability 0.917482
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 328100 104 + 23771897
-UGAACUAUGUGCACAUACAUAUUUAUAGUUGGAUGUUGGUACUCACUAUAUAUCCAACAGUGUCCCUCGUGGCCCACACGAGGAUUCCAAUCCUGGUUU------------UCCAC
-((((.((((((....))))))))))..(((((((((((((....)))).))))))))).(((..(((((((.....)))))))...(((....)))...------------..))) ( -30.70)
>DroSec_CAF1 467 104 + 1
-UGAACUAUGUGCACAUACAUAUAUAUAGUUGGAUGUCGGUACCCACUAUAUAUCCAACAGUGUGCCUCCUCGCCCACACGAGGAUUCCAAUCCUGGUCU------------UCCAC
-........(..((((((......))).(((((((((.(((....)))..))))))))).)))..).((((((......)))))).........(((...------------.))). ( -26.40)
>DroSim_CAF1 504 104 + 1
-UUAACUAUGUGCCCAUACAUAUAUAUAGUUGGAUGUCGGUACCCACUAUAUAUCCAACAGUGUCCCUCCUCGCCCACACGAGGAUUCCAAUCCUGGUCU------------UCAAC
-.....((((((....)))))).((((.(((((((((.(((....)))..))))))))).))))...((((((......))))))..(((....)))...------------..... ( -24.10)
>DroEre_CAF1 461 99 + 1
-AAUACUAUGUAUGU--G---GCUUUCACUUGGAAGUCGGUACCCACUAUAUAUCCAACAGUGUCCCUCGGCGCCCACACGAGGAUUCCAAUCCUCGUUU------------UCCAC
-.....((((((.((--(---((((((....)))))))((...)))))))))).......(((((....)))))....((((((((....))))))))..------------..... ( -24.70)
>DroYak_CAF1 502 100 + 1
UAAUACUAUGUAUGU--G---GGUUCCACUUGGAAGUCGGUACCCACUACAUAUCCAACAGUGUCCGCCGAAGCCCAUACGAGGAUUCCAAUCUUCGUUU------------UCCAC
......((((((.((--(---(((.(((((....))).)).))))))))))))...(((.((((..((....))..))))((((((....))))))))).------------..... ( -27.90)
>DroPer_CAF1 456 102 + 1
--GAAUCAUCUGAGCCC-CAAACCAAUAG---------CGAACCCACUCUUUAUCCAACAGUU---GUAGAAGCCGACACCAGGCAUCCAGGGCUCAUUCUCAGGAAUAUCCUCCAC
--........(((((((-.......((((---------(.....................)))---)).((.(((.......))).))..)))))))......(((......))).. ( -22.10)
>consensus
_UGAACUAUGUGCGCAUACAUAUUUAUAGUUGGAUGUCGGUACCCACUAUAUAUCCAACAGUGUCCCUCGUCGCCCACACGAGGAUUCCAAUCCUCGUUU____________UCCAC
............................((((((....((......)).....)))))).(((..(......)..)))((.(((((....))))).))................... ( -6.26 =  -7.43 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:01 2006