Locus 4877

Sequence ID 2R_DroMel_CAF1
Location 15,953,971 – 15,954,071
Length 100
Max. P 0.606391
window7824

overview

Window 4

Location 15,953,971 – 15,954,071
Length 100
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 83.77
Mean single sequence MFE -32.10
Consensus MFE -20.80
Energy contribution -22.23
Covariance contribution 1.43
Combinations/Pair 1.19
Mean z-score -2.51
Structure conservation index 0.65
SVM decision value 0.15
SVM RNA-class probability 0.606391
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15953971 100 + 20766785
GCGUGUUGUGAAACCUCGACAUCGCCACUAGCCCAUAACAGUA------ACAGUUACGAUUGCCGUAACUACGGCAGCAGUUGCAGCCAUAGA--AGUGGCAGUUGCA
((((((((.(....).))))).)))...............(((------((.((.((..(((((((....)))))))..)).)).(((((...--.))))).))))). ( -34.00)
>DroSec_CAF1 9497 100 + 1
GCGUGUUGUGAAACCUCGACAUCGCCACUAGCCCAUAACAGUA------ACAGUUACGAUUGCCGUAACUACGGCAGCAGUUGCAGCCAUAGA--AGUGGCAGUUGCA
((((((((.(....).))))).)))...............(((------((.((.((..(((((((....)))))))..)).)).(((((...--.))))).))))). ( -34.00)
>DroSim_CAF1 9498 100 + 1
GCGUGUUGUGAAACCUCGACAUCGCCACUAGCCCAUAACAGUA------ACAGUUACGAUUGCCGUAACUACGGCAGCAGUUGCAGCCAUAGA--AGUGGCAGUUGCA
((((((((.(....).))))).)))...............(((------((.((.((..(((((((....)))))))..)).)).(((((...--.))))).))))). ( -34.00)
>DroEre_CAF1 16144 106 + 1
GCAUGUUGCGAAACCUCGACAUCGCCACUAGCCCAUAACAGUAACAGUAACAGUAACGAUUGCCGUAACAACGGCAGCAGUUGCAGCCAUGGA--AGUGGCAGUUGCA
((((((((.(....).)))))).)).....................(((((.(((((..(((((((....)))))))..))))).(((((...--.))))).))))). ( -36.20)
>DroYak_CAF1 15569 102 + 1
GCAUGUUGUGAAACCUCGACAUCGCCACUAGCCCAUAACAGUA------ACAGUAACGAUUGGCGUAGCAACGGCAGCAGUUGCAGCCAUAGAAAAGUGGCAGUUGUA
((((((((.(....).)))))).)).........(((((....------...(((((..(((.(((....))).)))..))))).(((((......))))).))))). ( -29.30)
>DroAna_CAF1 8691 85 + 1
--UCGUUG-GAAACCUCGACAUCGUCACUGGCCCAUAACAGUA------ACAAUAACCAUUGCAGUUGCAA------------CAGCCAUAAU--AGCAACUGCUGGU
--(((..(-....)..)))....((.((((........)))).------))....((((..((((((((..------------..........--.)))))))))))) ( -25.12)
>consensus
GCGUGUUGUGAAACCUCGACAUCGCCACUAGCCCAUAACAGUA______ACAGUAACGAUUGCCGUAACAACGGCAGCAGUUGCAGCCAUAGA__AGUGGCAGUUGCA
((((((((.(....).)))))).((((((.......................((((((.....))))))...(((.((....)).))).......))))))....)). (-20.80 = -22.23 +   1.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:18 2006