Locus 1808

Sequence ID 2R_DroMel_CAF1
Location 6,778,213 – 6,778,305
Length 92
Max. P 0.818728
window2998

overview

Window 8

Location 6,778,213 – 6,778,305
Length 92
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 79.35
Mean single sequence MFE -22.95
Consensus MFE -14.02
Energy contribution -15.10
Covariance contribution 1.08
Combinations/Pair 1.12
Mean z-score -1.93
Structure conservation index 0.61
SVM decision value 0.67
SVM RNA-class probability 0.818728
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6778213 92 + 20766785
AACGGCAAGACA-AAAAGAAUUCAAUAAUAAUUUCCAGCAAUUUCGCAACUGGGCUGCGGCAGCAGC---AGCACCACAUUGCGGCAGAAGUUGCA-------------
............-........................((((((((((((.((((((((.......))---))).)))..))))....)))))))).------------- ( -24.90)
>DroSec_CAF1 28680 92 + 1
AACGGCAAGACA-AAAAGAAUUCAAUAAUAAUUUCCAGCAAUUUCGCAACUGGGCUGCGGCAGCAGC---AGCACCACAUUGCGGCAGAAGUUGCA-------------
............-........................((((((((((((.((((((((.......))---))).)))..))))....)))))))).------------- ( -24.90)
>DroSim_CAF1 35509 92 + 1
AACGGCAAGACA-AAAAGAAUUCAAUAAUAAUUUCCAGCAAUUUCGCAACUGGGCUGCGGCAGCAGC---AGCACCACAUUGCGGCAGAAGUUGCA-------------
............-........................((((((((((((.((((((((.......))---))).)))..))))....)))))))).------------- ( -24.90)
>DroEre_CAF1 27935 92 + 1
----GCAAGACA-AAAAGAAUUCAAUAAUAAUUUCCAGCAAUUUCGCAACUGAGCUGCGGCACCAGC---AGCACCACAUUGCGGCAGAAGUUGCA------GAAG---
----........-........................((((((((((((.((.(((((.......))---)))..))..))))....)))))))).------....--- ( -19.90)
>DroWil_CAF1 43815 96 + 1
AACAACAACAGAAAAAAGAAUUCAAUAAUAAUUUG-AGGUAUUUCGCAAUUUU-----GGUAACACU---UGCUGCCUGUUGCGGU----GUUUCAUUUGUAGUAGUUU
(((.((.(((((.........((((.......)))-)((.((.(((((((...-----((((.(...---.).)))).))))))).----)).)).))))).)).))). ( -19.00)
>DroYak_CAF1 36154 91 + 1
----GCAAGACA-AAAAGAAUUCAAUAAUAAUUUCCAGCAAUUUCGCAACUGAGCUGCGCCACCAGCAGCAGCACCACAUUGCGGCAGAAGUUGCA-------------
----........-........................((((((((((......(((((.......))))).(((......))).)).)))))))).------------- ( -24.10)
>consensus
AACGGCAAGACA_AAAAGAAUUCAAUAAUAAUUUCCAGCAAUUUCGCAACUGGGCUGCGGCAGCAGC___AGCACCACAUUGCGGCAGAAGUUGCA_____________
.....................................((((((((((......((((......))))....(((......))).)).)))))))).............. (-14.02 = -15.10 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:35 2006