Locus 7789

Sequence ID 3L_DroMel_CAF1
Location 20,793,652 – 20,793,745
Length 93
Max. P 0.970054
window12677

overview

Window 7

Location 20,793,652 – 20,793,745
Length 93
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 75.86
Mean single sequence MFE -34.32
Consensus MFE -16.63
Energy contribution -17.85
Covariance contribution 1.22
Combinations/Pair 1.22
Mean z-score -2.48
Structure conservation index 0.48
SVM decision value 1.65
SVM RNA-class probability 0.970054
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20793652 93 - 23771897
UUUCCGGAUCCGGA---GCAGCUGGCUUCCCAUCCAGCUCUA------------GCUCCAUCUCGAGCUCCUUGGGGCCGGGCAAACCUGUCAAUUUGCAACUGGCAC
...((((..(((((---((((((((........))))))...------------))))).....(.((((....)))))))(((((........)))))..))))... ( -33.10)
>DroSec_CAF1 49358 93 - 1
GUUCCGGAUCCGGA---GCAGCUGUCUUCCCAUCCAGCUCUA------------GCUCCAUCUCGAGCUCCUUGGGGCCGGGCAAACCUGCCAAUUUGCAACUGGCAC
((((((....))))---)).........((((...(((((.(------------(......)).)))))...))))((((((((((........)))))..))))).. ( -34.60)
>DroSim_CAF1 47808 93 - 1
GUUCCGGAUCCGGA---GCAGCUGGCUUCCCAUCGAGUUCUA------------GCUCCAUCUCGAGCUCCUUGGGGCCGGGCAAACCUGCCAAUUUGCAACUGGCAC
((((((....))))---)).((((((..((((..((((((.(------------(......)).))))))..))))))).((((....))))...........))).. ( -38.10)
>DroEre_CAF1 48904 81 - 1
GUUCCGGAUCCGGA---GCAGCUGGCUUCCCAUCCAGC------------------------UCCAGCUCCUUGGGACCCGGCAAACCCGCCAAUCUGCAACUGGCAC
((((((....))))---)).(((((..(((((...(((------------------------....)))...))))).)))))......((((.........)))).. ( -34.20)
>DroYak_CAF1 47177 105 - 1
CUUCCGGAUCCGGA---GCAGCUGGCUUCCCAUCCAGCUCCAGCGCCAGCUUCAGCUCCAGCUCCAGCUCCUUGGGACCCGGCAAACCUGCCAAUCUGCAACUGGCAC
.(((((....))))---)..(((((..(((((...((((..(((...(((....)))...)))..))))...))))).))))).....(((((.........))))). ( -39.00)
>DroAna_CAF1 49865 79 - 1
--GCCGGAUCCGGGGCAACAGCUGGCUCCCCCUCCU---------------------------CCCCAUCGUCCGGCCUUGGCAAACCUGCCAAUUUGCAAAUGGGUC
--(((((((..((((....((..((.....))..))---------------------------))))...))))))).((((((....)))))).............. ( -26.90)
>consensus
GUUCCGGAUCCGGA___GCAGCUGGCUUCCCAUCCAGCUCUA____________GCUCCAUCUCCAGCUCCUUGGGGCCGGGCAAACCUGCCAAUUUGCAACUGGCAC
..((((....))))...((((..((..(((((...((((..........................))))...))))))).((((....))))...))))......... (-16.63 = -17.85 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:57 2006