Locus 1118

Sequence ID 3R_DroMel_CAF1
Location 3,379,663 – 3,379,759
Length 96
Max. P 0.957019
window1832

overview

Window 2

Location 3,379,663 – 3,379,759
Length 96
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.61
Mean single sequence MFE -24.54
Consensus MFE -16.91
Energy contribution -16.51
Covariance contribution -0.40
Combinations/Pair 1.30
Mean z-score -1.70
Structure conservation index 0.69
SVM decision value 1.47
SVM RNA-class probability 0.957019
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3379663 96 + 27905053
CUAUUUUGCUGGCC-------------AGCCAGAGGAGUAACUCUCCAAAAUGUUCGGUUCAUUAUACCCUAGCACAGGGUAU----------UUUAAAGCCCCAAUAAUC-CCGAAUUU
.((((((.((((..-------------..)))).((((.....))))))))))...((((....(((((((.....)))))))----------.....)))).........-........ ( -24.00)
>DroSec_CAF1 8004 96 + 1
CUAUUUUGCUGGCC-------------GGCCAGAGGAAUAACUCUGCAAAAUGUUUGGUUCAUUAUACCCUAGCACAGGGUAU----------UCUCAAGACCCAAUAAUC-CCGAAUUU
.((((((((.((..-------------..))((((......)))))))))))).((((.((...(((((((.....)))))))----------......)).)))).....-........ ( -25.00)
>DroAna_CAF1 17033 100 + 1
CUAUUUUCCUGGCCUGUGGGCGGUUGCAGCCAAAGGGGAUUC-UUGCUACAUGUUUAGUACAUUAUAUCCUGUAAAAGGGUAU----------GCCAUA-------UAAUG-UUGCAUU-
....(..(((.(((....)))(((....)))..)))..)...-.(((.((((...((......((((((((.....)))))))----------)...))-------..)))-).)))..- ( -25.30)
>DroSim_CAF1 8840 96 + 1
CUAUUUUGCUGGCC-------------GGCCAGAGGAAUAACUCUCCAAAAUGUUCGGUUCAUUAUACCCUAGCACAGGGUAU----------UCUCAAGACCCAAUAAUC-CCGAAUUU
.(((((..((((..-------------..))))..)))))...........((((.((((....(((((((.....)))))))----------......)))).))))...-........ ( -23.00)
>DroEre_CAF1 8503 106 + 1
CUAUUUUGCUGGCC-------------GGCCAGAAGAGUAACUCUCCAAACUGUUCGGUUCAUUAUACCCUAGCACGGGGUACUGCAGCUAUUUCCCCAG-CCCAAUAAACACCGCAUUU
.((((..(((((((-------------(..(((..(((.....)))....)))..))).......((((((.....))))))..............))))-)..))))............ ( -25.40)
>consensus
CUAUUUUGCUGGCC_____________GGCCAGAGGAGUAACUCUCCAAAAUGUUCGGUUCAUUAUACCCUAGCACAGGGUAU__________UCUCAAG_CCCAAUAAUC_CCGAAUUU
.((((((.(((((...............))))).))))))............((((((...((((((((((.....))))))........................))))..)))))).. (-16.91 = -16.51 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:23 2006