Locus 6430

Sequence ID 2R_DroMel_CAF1
Location 20,078,388 – 20,078,497
Length 109
Max. P 0.779015
window10258

overview

Window 8

Location 20,078,388 – 20,078,497
Length 109
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 76.90
Mean single sequence MFE -40.10
Consensus MFE -23.81
Energy contribution -25.07
Covariance contribution 1.26
Combinations/Pair 1.27
Mean z-score -1.68
Structure conservation index 0.59
SVM decision value 0.55
SVM RNA-class probability 0.779015
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20078388 109 + 20766785
CCGAGCUUCUGGGCCAGCUUCUGGGUGACCUUAAGAUCGGGCAUGGUGUGCACCAUUGGCACCGAGGCCUCGGAGGUCUGUCCCUG------CGGGUUAAAUGUUUAAUUAUUCU
.((..((((((((((..(((..((....))..))).(((((((((((....)))))..)).)))))))).))))))..)).(((..------.)))................... ( -39.60)
>DroPse_CAF1 1863 115 + 1
CCAAGCUUCUGGGCCAGUUUUUGGGUGACUUUGAGGUCAGGCAUGGUGUGCACCAUCGGCACCGAGGCCUCAGAGGUUUGGCCCUUUCGGAGAGGGAAAAUUAUGAAAUUAGUUC
(((((((((((((((.....((((.(((((....)))))(.((((((....))))).).).)))))))).)))))))))))(((((.....)))))................... ( -44.50)
>DroEre_CAF1 1915 109 + 1
CCAAGCUUCUGGGCCAGCUUCUGGGUGACCUUAAGGUCGGGCAUGGUGUGCACCAUGGGCACCGAUGCCUCGGAGGUCUGUCCCUG------CGGGUUGAAUGUUUAAUUAUUCG
...(((((..(((.(((((((((...((((....))))(((((((((((.(.....).))))).)))))))))))).))).)))..------.)))))(((((......))))). ( -45.30)
>DroWil_CAF1 1789 110 + 1
CCCAGCUUCUGAGCCAAUUUCUGGGUGACCUUAAGGUCGGGCAUGGUGUGAACCAUAGGAACCGAUGCUUCUGACAUUUGAGCCUAC--AAAAGGUAAGACUGACCAAUUAU---
....(((....)))........((....))....((((((...((((....))))((((..(.(((((....).)))).)..)))).--...........))))))......--- ( -26.30)
>DroAna_CAF1 1777 108 + 1
CCCAGUUUCUGGGCCAACUUUUGGGUGACCUUCAGAUCAGGCAUGGUGUGCACCAUGGGCACCGAGGCCUCCGAUGUCUGACCCUG------GAAGAGAAAAGUUGAA-UACUCA
(((((...))))).((((((((((....))(((((.(((((((((((((.(.....).)))))..((...)).))))))))..)))------))....))))))))..-...... ( -40.40)
>DroPer_CAF1 1864 115 + 1
CCAAGCUUCUGGGCCAGUUUUUGGGUGACUUUGAGGUCAGGCAUGGUGUGCACCAUCGGCACCGAGGCCUCAGAGGUUUGGCCCUUUCGGAGAGGGAAAAUUAUGAAAUUAGUUC
(((((((((((((((.....((((.(((((....)))))(.((((((....))))).).).)))))))).)))))))))))(((((.....)))))................... ( -44.50)
>consensus
CCAAGCUUCUGGGCCAGCUUCUGGGUGACCUUAAGGUCAGGCAUGGUGUGCACCAUCGGCACCGAGGCCUCAGAGGUCUGACCCUG______AGGGAAAAAUGUUAAAUUAUUCC
.((.(((((((((((......((..(((((....)))))..))((((((.........)))))).)))).))))))).)).((((.......))))................... (-23.81 = -25.07 +   1.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:49 2006