Locus 8482

Sequence ID 3L_DroMel_CAF1
Location 22,280,062 – 22,280,175
Length 113
Max. P 0.854319
window13883

overview

Window 3

Location 22,280,062 – 22,280,175
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.01
Mean single sequence MFE -31.68
Consensus MFE -28.42
Energy contribution -28.74
Covariance contribution 0.32
Combinations/Pair 1.03
Mean z-score -1.37
Structure conservation index 0.90
SVM decision value 0.80
SVM RNA-class probability 0.854319
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22280062 113 + 23771897
CCCCUUUCUGCCACCAAAAA-UUUGGAGAAGAAGUAAUAGUCUUUAAGC------CUUAAAGCGCCAACCCGAUUGCGGGCCUGGCAUAACUUCUGGUUCUUUGUCAAGCGGGAAAGUAA
....(((((((..((((...-.)))).((((((.((..(((......((------......))((((.((((....))))..))))...)))..)).)))))).....)))))))..... ( -31.20)
>DroSec_CAF1 38447 113 + 1
CCCCUUUCUGCCACCAAAAA-UGUGGAGAAAAAGUAAUGGUCUUUAAGC------CUUAAAGCGCCAACCCGAUUGCGGGCCUGGCAUAACUUCUGGUUCUUUGUCAAGCGGGAAAGUAA
.((((((((.((((......-.)))))))))......(((((((((...------..))))).))))..(((....)))((.(((((.(((.....)))...))))).)))))....... ( -29.10)
>DroSim_CAF1 30038 113 + 1
CCCCUUUCUGCCACCAAAAA-UGAGGAGAAAAAGUAAUGGUCUUUAAGC------CUUAAAGCGCCAACCCGAUUGCGGGCCUGGCAUAACUUCUGGUUCUUUGUCAAGCGGGAAAGUAA
....(((((((...((((((-(.(((((..........(((......))------).......((((.((((....))))..))))....))))).))).))))....)))))))..... ( -30.80)
>DroEre_CAF1 37106 116 + 1
---CUUUCUGCCACCAAAAA-UAGGGAGAACAAGUAAUAGUCUUUAAGCGGCAGUCUUAAAGCGCCAGCCCGAUUGCGGGCCUGGCAUAACUUCUGGCUCUUUGUCAAGCGGGAAAGUAA
---.(((((((........(-(((((((...((((....(.((((((((....).))))))))(((((((((....)))).)))))...))))....))))))))...)))))))..... ( -37.20)
>DroYak_CAF1 3171 114 + 1
CCCCUUUCUGCCACCAAAAACUAAGGAGAAAAAGUAAUAGUCUUUAAGC------CUUAAAGCGCCAACCCGAUUGCGGGCCUGGCAUAACUUCUGGUUCUUUGUCAAGCGGGAAAAUAA
....(((((((...(((((((((.((((...........(.(((((...------..))))))((((.((((....))))..))))....))))))))).))))....)))))))..... ( -30.10)
>consensus
CCCCUUUCUGCCACCAAAAA_UAAGGAGAAAAAGUAAUAGUCUUUAAGC______CUUAAAGCGCCAACCCGAUUGCGGGCCUGGCAUAACUUCUGGUUCUUUGUCAAGCGGGAAAGUAA
....(((((((...((((.....(((((...........(.(((((((.......))))))))((((.((((....))))..))))....))))).....))))....)))))))..... (-28.42 = -28.74 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:16:43 2006