Locus 5492

Sequence ID 2L_DroMel_CAF1
Location 15,702,686 – 15,702,780
Length 94
Max. P 0.808326
window8713

overview

Window 3

Location 15,702,686 – 15,702,780
Length 94
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.48
Mean single sequence MFE -28.13
Consensus MFE -9.56
Energy contribution -10.62
Covariance contribution 1.06
Combinations/Pair 1.14
Mean z-score -2.35
Structure conservation index 0.34
SVM decision value 0.64
SVM RNA-class probability 0.808326
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15702686 94 - 22407834
--------------GGAG----AGCUGC----GGAGGAAGCGACAGGAUUCGGAGCCAGAAAGGC---AGCUA-AAAUGCAAAUAAAUUUGCUGGCUGUGACUGUCAUUGAGUCUGUAAU
--------------....----...(((----(((...((.(((((...(((.(((((((((.((---(....-...))).......))).)))))).)))))))).))...)))))).. ( -26.60)
>DroPse_CAF1 29737 103 - 1
AUCCACAGUCAGAAUAAGAGUCAGGGGC----AGAGGCAGGGGCAG-AGU------CAG--AGGC---AGCUA-AAAUGCAAAUAAAUUUGCUGGCUGUGACUGUCAUUGAGUCUGUAAU
..((..(.((.......)).)...))((----(((..(((.((((.-.((------((.--((.(---(((..-((((........)))))))).)).)))))))).)))..)))))... ( -29.60)
>DroSec_CAF1 31072 94 - 1
--------------GGCG----AGCUGC----GGAGGAAGCGACAGGAUUCGCAGCCAGAAAGGC---AGCUA-AAAUGCAAAUAAAUUUGCUGGCUGUGACUGUCAUUGAGUCUGUAAU
--------------(((.----.(((..----......)))(((((...(((((((((((((.((---(....-...))).......))).))))))))))))))).....)))...... ( -31.50)
>DroYak_CAF1 33603 94 - 1
--------------GGAG----UGCUGC----GGAGGAAGCGACAGGAUUCGGAGCCAGAAAAGC---AGCUA-AAAUGCAAAUAAAUUUGCUGGCUGCGACUGUCAUUGAGUCUGUAAU
--------------....----((((..----......))))((((.((((((.(.(((....((---(((((-....(((((....))))))))))))..))).).))))))))))... ( -27.90)
>DroMoj_CAF1 31821 78 - 1
--------------------------AG----GGAGGCAGCAGCAG---------C-CC--AGGCUGAAGCUAAAAAUGCAAAUAAAUUUGCUGGCUGUGACUGUCAUUGAGUCUGUAAU
--------------------------..----...(((((..((((---------(-(.--.(((....)))......(((((....))))).))))))..))))).............. ( -24.20)
>DroAna_CAF1 22462 98 - 1
--------------GGAG----AGAAGCAGUUGGGGGAUGGGUGCGAAGUCGGUGCCAGAAAGGC---AGCUA-AAAUGCAAAUAAAUUUGCUGGCUGUGACUGUCAUUGAGUCUGUAAU
--------------.((.----((..(((((..(.((((...((((.....(.((((.....)))---).)..-...)))).....)))).)..)))))..)).)).............. ( -29.00)
>consensus
______________GGAG____AGCUGC____GGAGGAAGCGACAGGAUUCGGAGCCAGAAAGGC___AGCUA_AAAUGCAAAUAAAUUUGCUGGCUGUGACUGUCAUUGAGUCUGUAAU
................................(((......(((((........(((.....)))...(((((.....(((((....))))))))))....)))))......)))..... ( -9.56 = -10.62 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:26 2006