Locus 4475

Sequence ID 2L_DroMel_CAF1
Location 12,822,810 – 12,822,913
Length 103
Max. P 0.973799
window7040

overview

Window 0

Location 12,822,810 – 12,822,913
Length 103
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 77.95
Mean single sequence MFE -45.08
Consensus MFE -24.25
Energy contribution -26.70
Covariance contribution 2.45
Combinations/Pair 1.12
Mean z-score -2.70
Structure conservation index 0.54
SVM decision value 1.72
SVM RNA-class probability 0.973799
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12822810 103 - 22407834
UGUCCGCUCGCGAGCCGAGCGGCAGAAGAGCAACCGAAGUUACUUCGGCGGCGGCCGAGUGGCAAAG-------CGACUGCGGAGGCUUUGAUUGAA------AUCGAAGAAGCUC
..(((((((((..((((..((((......((..((((((...))))))..)).))))..))))...)-------)))..)))))((((((..(((..------..))).)))))). ( -46.80)
>DroPse_CAF1 3635 103 - 1
CGUCCGAACCCAAGCCGCCCGA------------CGCAGAGUCUUCGGCUUCGGCCGAACGGCCAUGCCUGAAACGACGAAG-CGACUUUCAGCGAGCCCCAGAGCCACCAGGCAG
.............((((...((------------(.....)))((((((....))))))))))..((((((..........(-(........))(.((......)))..)))))). ( -33.60)
>DroSec_CAF1 3788 103 - 1
UGUUCGCUCGCGAGCCGAGCGGCAGAAGAGCAAUCGAAGUGGCUUCGGCGGCGGCCGAGUGGCAAUG-------CGACUGCGGAGGCUUUGAUUGAA------AUCGAAGAAGCUC
..((((((((((.((((..((((....((....))...((.((....)).)).))))..))))..))-------)))..)))))((((((..(((..------..))).)))))). ( -42.70)
>DroSim_CAF1 3303 103 - 1
UGUUCGCUCGCGAGCCGAGCGGCAGAAGAGCAACCGAAGCGGCUUCGGCGGCGGCCGAGUGGCAAAG-------CGACUGCGGAGGCUUUGAUUGAA------AUCGAAGAAGCUC
..(((((((((..((((..((((......((..((((((...))))))..)).))))..))))...)-------)))..)))))((((((..(((..------..))).)))))). ( -43.90)
>DroEre_CAF1 9745 103 - 1
UCUCCGCUCGCGAGCCGAACGGCAGAAGAGCAGCCGAAGCGACUUCGGCUGCGCCCGAGUGGCAAAG-------CGACUGCGGAGGCUUUGAUUGAA------AUCGAAGAAGCUC
.((((((((((..((((..(((.......((((((((((...))))))))))..)))..))))...)-------)))..))))))(((((..(((..------..))).))))).. ( -49.80)
>DroYak_CAF1 3825 103 - 1
UUUCCGCUCGCGAGCCGAGCGGCAGAAGAGCAGCCGAAGUGGCUUCGGCUGCGGCCGAGUGGCAAAG-------CGACUGCGGAGGCUUUGAUUGAA------AUCGAAGAAGCUC
..(((((((((..((((..((((......((((((((((...)))))))))).))))..))))...)-------)))..)))))((((((..(((..------..))).)))))). ( -53.70)
>consensus
UGUCCGCUCGCGAGCCGAGCGGCAGAAGAGCAACCGAAGUGGCUUCGGCGGCGGCCGAGUGGCAAAG_______CGACUGCGGAGGCUUUGAUUGAA______AUCGAAGAAGCUC
..(((((...((.((((..((((......((..((((((...))))))..)).))))..))))...........))...)))))((((((..((((........)))).)))))). (-24.25 = -26.70 +   2.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:43 2006