Locus 3796

Sequence ID 3R_DroMel_CAF1
Location 10,310,927 – 10,311,021
Length 94
Max. P 0.509957
window6090

overview

Window 0

Location 10,310,927 – 10,311,021
Length 94
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 87.50
Mean single sequence MFE -22.66
Consensus MFE -15.47
Energy contribution -16.11
Covariance contribution 0.64
Combinations/Pair 1.11
Mean z-score -1.78
Structure conservation index 0.68
SVM decision value -0.05
SVM RNA-class probability 0.509957
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10310927 94 + 27905053
ACAAA-----GCAAAAGCUGUGUCAACUUUGGACGAUAUGCGGAAUGGGGUCUGCGUUGGGUCUGCGCUGGCUAAAGGAGACAAAGGAAGGGAAGUGAA
....(-----((....))).((((..((((((((...(((((((......)))))))...))))((....)).))))..))))................ ( -21.80)
>DroSec_CAF1 167889 86 + 1
ACAAA-----GCAAAAGCUGUGUCAACUUUGGACCAUAUGCGGAAUGGGGUCUG--------CUGCGCUGGCUAAAGGAGACAAAGGAAGGGAAGUGAA
....(-----((....))).((((..((((((.(((...(((((......))))--------).....)))))))))..))))................ ( -22.30)
>DroSim_CAF1 168263 86 + 1
ACAAA-----GCAAAAGCUGUGUCAACUUUGGACCAUAUGCGGAAUGGGGUCUG--------CUGCGCUGGCUAAAGGAGACAAAGGAAGGGAAGUGAA
....(-----((....))).((((..((((((.(((...(((((......))))--------).....)))))))))..))))................ ( -22.30)
>DroEre_CAF1 167534 88 + 1
ACAAAGCAAAGCAAAAGCUGUGUCAACUUUGGACCAAAUUCGGGAUGGGGUCUC--------C---UUUGGCCAAAGGAGACAAAGGAAGGGAAGUGAA
.....((..(((....))).((((..((((((.(((((...(((((...)))))--------.---)))))))))))..))))...........))... ( -23.60)
>DroYak_CAF1 177557 86 + 1
ACAAA-----GCAAAAGCUGUGUCAACUUUGAACCAAAUGCGGGAUGGGGUCUG--------CCGCAUUGGCCAAAGGAGACAAAGGAAGGGAAGUGAA
....(-----((....))).((((..(((((..((((.(((((.(.......).--------))))))))).)))))..))))................ ( -23.30)
>consensus
ACAAA_____GCAAAAGCUGUGUCAACUUUGGACCAUAUGCGGAAUGGGGUCUG________CUGCGCUGGCUAAAGGAGACAAAGGAAGGGAAGUGAA
.................((.((((..((((((.(((...((((...................))))..)))))))))..)))).))............. (-15.47 = -16.11 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:22 2006