Locus 8934

Sequence ID 3R_DroMel_CAF1
Location 23,967,425 – 23,967,530
Length 105
Max. P 0.540975
window14323

overview

Window 3

Location 23,967,425 – 23,967,530
Length 105
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 85.42
Mean single sequence MFE -35.90
Consensus MFE -24.30
Energy contribution -25.43
Covariance contribution 1.13
Combinations/Pair 1.04
Mean z-score -1.53
Structure conservation index 0.68
SVM decision value 0.01
SVM RNA-class probability 0.540975
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23967425 105 + 27905053
UGCCAGUGUCCCGAC-------CGAAAGGACGAAAGGCCUUGCCAGCUGGG---UUCUGGAGCUGCAGGACGAAAGGAUGCUGGGG---AAUGGGGAACUUGG-GAAAAGAGGAUGUGC
..(((((..((((.(-------(..((((.(....).)))).(((((....---(((((......)))))(....)...)))))))---..))))..)).)))-............... ( -32.10)
>DroSec_CAF1 169130 106 + 1
UGCCAGUGUCCCGAC-------CGAAAGGACGAAAGGCCUUGCCAGCUGGG---UCCUGGAGCUGCAGGACGAAAGGAUACAGGGG---AAAGGGGAAAUUGGGGAAGAGAGGAUGUGC
..(((((.((((..(-------(....)).(....).(((((((....))(---(((((......)))))).........))))).---....)))).)))))................ ( -35.50)
>DroEre_CAF1 177640 108 + 1
UGCCAGUGUCCCGAC-------CAAAAGGACGAAAGGCCUUGCCAGCUGGG---UCCUGGAACUGCAGGACGAAGGGAUGCGGAUGGGGAAGGGGGAAAUCGG-GAAAAGAGGAUGUGC
..((....(((((((-------(.......(....).((((.((..(((.(---((((.(..(....)..)...))))).)))...)).)))).))...))))-)).....))...... ( -34.00)
>DroYak_CAF1 177954 115 + 1
UGCCAGUGUCCCGACCGAAAACCAAAAGGACGAAAGGCCUUGCCAGCUGCGUCGUCCUGGAACUGCAGGACGAAAGGAUGCGGAUG---CAGGGGAAAAUUGG-GAAAAGGGGAUGUGC
.((((...((((..((((...((....)).(....).((((((...(((((((.(((((......)))))(....))))))))..)---))))).....))))-.....)))).)).)) ( -42.00)
>consensus
UGCCAGUGUCCCGAC_______CAAAAGGACGAAAGGCCUUGCCAGCUGGG___UCCUGGAACUGCAGGACGAAAGGAUGCGGAGG___AAGGGGGAAAUUGG_GAAAAGAGGAUGUGC
..(((((.((((.............((((.(....).)))).((((..........))))..(((((...(....)..)))))..........)))).)))))................ (-24.30 = -25.43 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:01 2006