Locus 612

Sequence ID 2L_DroMel_CAF1
Location 1,821,126 – 1,821,237
Length 111
Max. P 0.506125
window1002

overview

Window 2

Location 1,821,126 – 1,821,237
Length 111
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 71.38
Mean single sequence MFE -25.75
Consensus MFE -11.62
Energy contribution -13.25
Covariance contribution 1.62
Combinations/Pair 1.12
Mean z-score -1.96
Structure conservation index 0.45
SVM decision value -0.05
SVM RNA-class probability 0.506125
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1821126 111 + 22407834
GCAGCUGAAGGGUAACGGUGGGCUGUGGGUGGGAUGUUCGCUAAGCUUCUAAAUGCUUAAGUCUUUA-AUUCUAGGAGUAGCA-ACUAAUAUUCUUAGUAAAGAAUAAGCAAU
((((((.(..(....)..).)))))).(((((.....)))))...........((((((..((((((-...(((((((((...-.....))))))))))))))).)))))).. ( -30.10)
>DroSec_CAF1 41140 90 + 1
GCAGCUGAAG---------------------GGAUGCUCGCCAAGCUUCUAAAAGUUAAUAUCUUUA-AUUCUAGGAGUAGCA-ACUAAUAUUCUUAGUAAAGAGUAAGCAAU
((((((....---------------------(((.(((.....))).)))...))))....((((((-...(((((((((...-.....)))))))))))))))....))... ( -21.50)
>DroSim_CAF1 18831 90 + 1
GCAGCUGAAG---------------------GGAUGCUCGCCAAGCUUCUAAAAGUUAAUAUCUUUA-AUUCUAGGAGUAGUA-ACUAAUAUUCCUAGUAAAGAGUAAGCAAU
((((((....---------------------(((.(((.....))).)))...))))....((((((-...(((((((((...-.....)))))))))))))))....))... ( -24.20)
>DroEre_CAF1 29588 108 + 1
GCAGCUGAAAGGUAACU----GCUGUGGGCGAAUUGCCUGUCAAGCUUCUAAGAUUUG-UAUGCUUAAGCUCGAGGAACAGCAAACCAAUACUCCGAGUAAAGAGUUAGCAAU
...(((((..(((...(----(((((((((.....)))).((.((((..((((.....-....)))))))).))...)))))).)))....(((........))))))))... ( -27.20)
>consensus
GCAGCUGAAG_____________________GGAUGCUCGCCAAGCUUCUAAAAGUUAAUAUCUUUA_AUUCUAGGAGUAGCA_ACUAAUAUUCCUAGUAAAGAGUAAGCAAU
...(((.........................(((.(((.....))).)))...........((((((....(((((((((.........)))))))))))))))...)))... (-11.62 = -13.25 +   1.62) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:57 2006