Locus 3534

Sequence ID 3R_DroMel_CAF1
Location 9,554,996 – 9,555,088
Length 92
Max. P 0.926701
window5681

overview

Window 1

Location 9,554,996 – 9,555,088
Length 92
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 74.10
Mean single sequence MFE -24.57
Consensus MFE -8.93
Energy contribution -9.48
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -2.45
Structure conservation index 0.36
SVM decision value 1.18
SVM RNA-class probability 0.926701
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9554996 92 + 27905053
UAGGUCUUC-GAGACUCCAGUACACAGUACACUUCUUGUACCAUAAACUUGUGCACCUGCA--CAGCCAAUGAAUUGCGCAAGAUCUGAUCAAAC-
(((((((((-(..(.((..(((((.((.......))))))).......((((((....)))--))).....)).)..)).)))))))).......- ( -20.20)
>DroSec_CAF1 31646 91 + 1
UUGGUCUGC-GAGACUCCAGUACACU-UGUACUUCUUGUGCCAUAAACUUGUGCACCUGCA--CAGCCAAUGGAUUGCGCAAGAGCUGAUCAAAU-
((((((.((-........(((((...-.)))))((((((((.((....((((((....)))--))).......)).)))))))))).))))))..- ( -30.30)
>DroSim_CAF1 31837 91 + 1
UAGGUCUGC-GAGACUCCAGUACACU-UGUACUUCUUGUGCCAUAAACUUGUGCACCUGCA--CAGCCAAUGGAUUGCGCAAGAGCUGAUCAAAC-
..((((.((-........(((((...-.)))))((((((((.((....((((((....)))--))).......)).)))))))))).))))....- ( -28.90)
>DroEre_CAF1 33391 89 + 1
UAGGUCUUC-GGUACUCCAGUAC--U-UCCAAUUCGAUCCACUCAAACCUGUGCACCUGCA--CAGCCAAUAAAUUGCGCAAGAGCUGAUCAAAC-
..((.....-(((((....))))--)-.)).....((((..(((.....(((((....)))--))(((((....))).))..)))..))))....- ( -22.50)
>DroYak_CAF1 32028 89 + 1
UCGGUCUUC-AGUACUCCAGUAC--U-UCCAUUUCGAUCCACUCAAACUAGUGCACCUGCA--CAGCCAAUAAAUUGCGCAAGAGCUGAUCAAAC-
..((.....-(((((....))))--)-.)).....((((..(((......((((....)))--).(((((....))).))..)))..))))....- ( -22.00)
>DroAna_CAF1 41288 77 + 1
UGGUUCUGUGGAAACUCCAGCAAC--------------CC-----ACCUGGAGCAGGUGCAGCGAGCCAAUCAGUUGCGCAAGAGUUGAGCAAACA
..(((.(((...(((((..((...--------------..-----(((((...)))))(((((((.....)).)))))))..)))))..)))))). ( -23.50)
>consensus
UAGGUCUGC_GAGACUCCAGUACA_U_UCCACUUCUUGCCCCAUAAACUUGUGCACCUGCA__CAGCCAAUGAAUUGCGCAAGAGCUGAUCAAAC_
..((((.......((....))..........................((((((((...((.....))........))))))))....))))..... ( -8.93 =  -9.48 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:36 2006