Locus 349

Sequence ID 3L_DroMel_CAF1
Location 1,016,049 – 1,016,147
Length 98
Max. P 0.658233
window517

overview

Window 7

Location 1,016,049 – 1,016,147
Length 98
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 78.82
Mean single sequence MFE -22.25
Consensus MFE -10.73
Energy contribution -10.57
Covariance contribution -0.16
Combinations/Pair 1.10
Mean z-score -1.99
Structure conservation index 0.48
SVM decision value 0.26
SVM RNA-class probability 0.658233
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1016049 98 + 23771897
GCUGCUCUCCCCCUCCUCCCCC--------UCUCGCGAGCACCCCUGCAUCCUCCCCCUAUUCAAAAUAUAUAUAUAUACGAUAUAUAUAUGUUGGUGCGGGUGAG
..(((((...............--------......)))))(.((((((((..............(((((((((((((...))))))))))))))))))))).).. ( -22.53)
>DroSec_CAF1 34237 101 + 1
GCUGCUCUCCCCCUCCUCCCCCUCACUCGCUCUCGCGAGCACCCCUGCAUCCUCCCCCUAUUCAGA---UAUAUAUAUACGAUAU--AUAUGUAGGUGCGGGUGAG
....(((.(((...............((((....))))(((((.(((.((.........)).))).---((((((((((...)))--))))))))))))))).))) ( -26.30)
>DroSim_CAF1 35156 100 + 1
GCUGCUCUCCCCCUCCUCCCCCUCACUCACUCUCGCGAGCACCCCUGCAUCCUCCCCCUAUUCAGA----AUAUAUAUACGAUAU--AUAUGUAGGUGCGGGUGAG
.....................(((((((..((....))(((((.(((.((.........)).))).----(((((((((...)))--)))))).)))))))))))) ( -21.10)
>DroEre_CAF1 35903 76 + 1
GCUGCUUCC-CCCGCACCCC-------------------CACCCCUGCAUCCUCCCCCUAUUCAGA----AUAUAUAUACGAUAU--AUA----GGUGCGGGUGAG
......((.-((((((((..-------------------.....(((.((.........)).))).----.(((((((...))))--)))----)))))))).)). ( -19.60)
>DroYak_CAF1 34992 85 + 1
GCUGCUUCC-CCCGCCCCUCCC------------UUGGCCGCCCCUGCAUCCUCCCCCUAUUCAGA----AUAUAUAUACGAUAU--AUA--GAGGUGCGGGUGAG
......((.-(((((.((((..------------..((..((....))..))..............----.(((((((...))))--)))--)))).))))).)). ( -21.70)
>consensus
GCUGCUCUCCCCCUCCUCCCCC________UCUCGCGAGCACCCCUGCAUCCUCCCCCUAUUCAGA____AUAUAUAUACGAUAU__AUAUGUAGGUGCGGGUGAG
.......................................(((((..(((((...........................................)))))))))).. (-10.73 = -10.57 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:47 2006