Locus 8749

Sequence ID 3L_DroMel_CAF1
Location 22,861,979 – 22,862,095
Length 116
Max. P 0.787389
window14324

overview

Window 4

Location 22,861,979 – 22,862,095
Length 116
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 79.27
Mean single sequence MFE -43.77
Consensus MFE -25.94
Energy contribution -25.72
Covariance contribution -0.22
Combinations/Pair 1.17
Mean z-score -1.93
Structure conservation index 0.59
SVM decision value 0.58
SVM RNA-class probability 0.787389
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22861979 116 - 23771897
GCACCAAUACCCGGCCGAAUUACAAUGGAUGCAGCGCUGCU-AGCAAGGAGCCACCUCCGCUGGCGGGAACCGGAUACGGAAGCGUGCCGUAAAAGUGGCAUAUUUGCCGCAUCCUG
..........................((((((.((.(((((-(((..((((....))))))))))))....(((.((((....))))))).....))((((....)))))))))).. ( -42.50)
>DroPse_CAF1 50316 103 - 1
GCGGCAGGGA-----AGAGUC----GGGAACGAGCACUGUUCAGC-----ACCACCUUCGCUGGCGGGUUCCGGAUACGGAAGCGUGCCAUAAAAGUGGCAUAUUUUCCGCAUCCUG
.((.(((.((-----((.((.----((....((((...))))...-----.)))))))).))).))......((((.((((((.(((((((....)))))))..)))))).)))).. ( -40.90)
>DroSec_CAF1 50210 115 - 1
GCCCCAAUACCCAGCCGAAUUACAAUGGAUGCAGCGCUGCU-AGCA-GGAGCCACCUCCGCUGGCGGGAACCGGAUACGGAAGCGUGCCGUAAAAGUGGCAUAUUUGCCGCAUCCUG
..........................((((((.((.(((((-(((.-((((....))))))))))))....(((.((((....))))))).....))((((....)))))))))).. ( -43.90)
>DroEre_CAF1 55066 116 - 1
GCCCCUGCACCCACCCGAAUCACAAUGGGUGCCGCGCUGCU-AGCAAGGAGCGACCUCCGCUGGCGGGAACCGGAUACGGAAGCGUGCCGUAAAAGUGGCAUAUUUGCCGCAUCCUG
((.(..(((((((............))))))).).)).(((-(((..((((....))))))))))((((..(((.((((....))))))).....((((((....)))))).)))). ( -48.10)
>DroYak_CAF1 51577 109 - 1
GCCUCAAUACACACCCGAAUUACAAUGGGUGCCACGCUGCU-AG-------CGAACUCCGCUGGCGGGAACCGGAUACGGAAGCGUGCCGUAAAAGUGGCAUAUUUGCCGCAUCCUG
.......(((.((((((........)))))).(((((((((-((-------((.....))))))).....(((....))).))))))..)))...((((((....))))))...... ( -43.90)
>DroPer_CAF1 50291 103 - 1
GCGGCAGGGA-----AGAGUC----GGGAACGAGCACUGUUCAGC-----ACCACCUUCGCUGGCGGGUUCCGGAUACGGAAGCGUGCCAUAAAAGUGGCAUAUUUGCCGCAUCCUG
((((((((((-----(.((((----(....)))...)).))).((-----.((.((......)).)).(((((....)))))))(((((((....))))))).))))))))...... ( -43.30)
>consensus
GCCCCAAUACCCA_CCGAAUCACAAUGGAUGCAGCGCUGCU_AGC_____GCCACCUCCGCUGGCGGGAACCGGAUACGGAAGCGUGCCGUAAAAGUGGCAUAUUUGCCGCAUCCUG
..........................((((...((((.(((...............((((....))))..(((....))).))))))).......((((((....)))))))))).. (-25.94 = -25.72 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:41 2006