Locus 1880

Sequence ID 3L_DroMel_CAF1
Location 5,262,574 – 5,262,672
Length 98
Max. P 0.899626
window2931

overview

Window 1

Location 5,262,574 – 5,262,672
Length 98
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.83
Mean single sequence MFE -22.54
Consensus MFE -14.38
Energy contribution -14.13
Covariance contribution -0.25
Combinations/Pair 1.26
Mean z-score -2.52
Structure conservation index 0.64
SVM decision value 1.01
SVM RNA-class probability 0.899626
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5262574 98 - 23771897
C----UAGCCCCUAAUUAACUUUGCU-C------GGAACUUUCACCCGACUUGGCUUUAAUUAAAGCCAUCUCAAUAAGUACUCCACAAGCACAUAAACAUC-----------UAGGCGA
.----..(((............((((-.------(((((((......((..(((((((....)))))))..))...))))..)))...))))..........-----------..))).. ( -20.45)
>DroPse_CAF1 52036 119 - 1
CUCACUGCCCCGUAAUUAACUCUGCC-CCCGAGAAGAACUUUCACUCGACUUGGCUUUAAUUAAAGCCAUCUCAAUAAGCACUCGGAGAGCACAUAAACAUCAUCUCCCACUCUCGGUGG
.........................(-(((((((.............((..(((((((....)))))))..))...........(((((..............)))))...)))))).)) ( -27.64)
>DroSec_CAF1 17262 98 - 1
C----UGGCCCCUAACUAACUUUGCC-C------GGAACUUUCACCCGACUUGGCUUUAAUUAAAGCCAUCUCAAUAAGUACUCCACGAGCACAUAAACAUC-----------UAGGCGA
.----................(((((-.------.((..........((..(((((((....)))))))..)).....((.(((...))).)).......))-----------..))))) ( -21.40)
>DroYak_CAF1 17521 98 - 1
C----UUGCCCCUAAUUAACUUUGCC-C------GGAACUUUCACCCGACUUGGCUUUAAUUAAAGCCAUCUCAAUAAGUACUCCACGAGCGCAUAAACAUC-----------UAGGCGA
.----................(((((-.------.((..........((..(((((((....)))))))..)).....(..(((...)))..).......))-----------..))))) ( -22.20)
>DroAna_CAF1 16092 98 - 1
C----UG-UCCCUAAUUAACUUUGCCCC------GAAACUUUCACCCGACUUGGCUUUAAUUAAAGCCAUCUCAAUAAGUACUCCACGAGCACAUAAACAUC-----------UCGCCGG
.----..-..................((------(............((..(((((((....)))))))..)).....((.(((...))).)).........-----------....))) ( -15.20)
>DroPer_CAF1 54325 119 - 1
CUCACUGCCCCGUAAUUAACUCUGCC-CCCGAGAAGAACUUUCACUCGACUUGGCUUUAAUUAAAGCCAUCUCAAUAAGCACUCGGAGAGCACAUAAACAUCAUCUCCCUCUCUCGGUGG
.........................(-(((((((.((..........((..(((((((....)))))))..))...........(((((..............))))).)))))))).)) ( -28.34)
>consensus
C____UGGCCCCUAAUUAACUUUGCC_C______GGAACUUUCACCCGACUUGGCUUUAAUUAAAGCCAUCUCAAUAAGUACUCCACGAGCACAUAAACAUC___________UAGGCGA
.....................(((((.....................((..(((((((....)))))))..)).....((.(((...))).))......................))))) (-14.38 = -14.13 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:00 2006