Locus 3309

Sequence ID 3L_DroMel_CAF1
Location 9,704,245 – 9,704,339
Length 94
Max. P 0.860909
window5146

overview

Window 6

Location 9,704,245 – 9,704,339
Length 94
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 78.09
Mean single sequence MFE -48.83
Consensus MFE -31.50
Energy contribution -33.00
Covariance contribution 1.50
Combinations/Pair 1.14
Mean z-score -1.74
Structure conservation index 0.65
SVM decision value 0.83
SVM RNA-class probability 0.860909
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9704245 94 - 23771897
GCUGGCGGCGCUCGAUGGCUCCGCCA---G------GAGCGGCAGCAGCGGCUGCCGACCGGGUGGCGGCCACGGUCAAGGGGCGCUGGGCUGAAAGUGCAGU
.....((((((((....(((((....---)------))))((((((....))))))((((((((....))).)))))...)))))))).((((......)))) ( -50.90)
>DroGri_CAF1 1 95 - 1
GCUGGCGGCGCUCGACGGCACCGCCACCGGAUGGGGAAGCAGCGGCGGCAGCUGCCGAACGGCUGGCCACCAGGGUCAAUGGGCGCUGAGCUGCA--------
((((((((.(((....))).))))).((.....))..))).(((((((((((((.....))))).)))..(((.(((....))).))).))))).-------- ( -46.80)
>DroSim_CAF1 1 94 - 1
GCUGACGGCGCUCGAUGGCUCCGCCA---G------GAGCGGCAGCAGCGGCUGCCGACCGGGUGGCGGCCACGGUCAAGGGGCGCUGGGCUGUAAGUGCAGU
.....((((((((....(((((....---)------))))((((((....))))))((((((((....))).)))))...)))))))).(((((....))))) ( -52.70)
>DroYak_CAF1 1 94 - 1
GCUGACGGCGCUCGAUGGCACCGCCA---G------GAGCGGCAGCAGCGGCGGCCGACCGGGUGGCGGCCACGGUCAAGGGGCGCUGGGCUGUAAGUGCAGU
((((((..(((((..((((...))))---.------)))))(((((..(((((.((((((((((....))).)))))...)).))))).)))))..)).)))) ( -49.30)
>DroMoj_CAF1 1 100 - 1
GCUGACGGCGCUCAACAGCUCCGCCC---GCUGGCUGAGCAGCGGCAGCAGCUGCCGUACGGCUAGCCACCAAAGUCAAUGGGCGCUGGGCUAUAAAAAAAAA
(((..(((((((((...(((......---((((((((.((.(((((....))))).)).))))))))......)))...))))))))))))............ ( -42.30)
>DroAna_CAF1 1 100 - 1
GCUGGCGGCGUUCGACGGCACCACCG---GCGGGCUGAGCGGCAGCAGCAGCUGCCGACCGGGUGGCGGCCACGGUCAAGGGGCGCUGGGCUGCAAAUGCAAA
(((((.((.((......)).)).)))---)).((((.(((((((((....))))))((((((((....))).))))).......))).))))((....))... ( -51.00)
>consensus
GCUGACGGCGCUCGACGGCACCGCCA___G______GAGCGGCAGCAGCAGCUGCCGACCGGGUGGCGGCCACGGUCAAGGGGCGCUGGGCUGUAAGUGCAGU
(((..((((((((...(((...)))...............((((((....))))))((((((((....))).)))))...)))))))))))............ (-31.50 = -33.00 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:30 2006