Locus 5849

Sequence ID 3R_DroMel_CAF1
Location 15,329,710 – 15,329,803
Length 93
Max. P 0.684454
window9569

overview

Window 9

Location 15,329,710 – 15,329,803
Length 93
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 77.03
Mean single sequence MFE -41.32
Consensus MFE -25.68
Energy contribution -25.77
Covariance contribution 0.09
Combinations/Pair 1.37
Mean z-score -1.45
Structure conservation index 0.62
SVM decision value 0.31
SVM RNA-class probability 0.684454
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15329710 93 - 27905053
CGGCAAGGGGGGCGGGGCACCGGUUUUGUGGGCCGGCAGCGUGUUAG--UCGCA-------U---------------GCUGCUCCUGCGAUCCCUGUUUCCUCAGCAAUUGCUGUCC
(((((((((..((((((........(((..((..((((((((((...--..)))-------)---------------))))))))..))).))))))..)))......))))))... ( -43.30)
>DroSec_CAF1 82531 93 - 1
CGGCAAGGGGGGCGGGGCACCGGUUUUGUGGGCCGGCAGCGUGUUAG--UCGCA-------U---------------GCUGCUCCUGUGAUCCCUGUUUCCUCAGCAAUUGCUGUCC
(((((((((..((((((((((((((.....)))))(((((((((...--..)))-------)---------------)))))....)))..))))))..)))......))))))... ( -43.70)
>DroSim_CAF1 84310 93 - 1
CGGCAAGGGGGGCGGGGCACCGGUUUUGUGGGCCGGCAGCGUGUUAG--UCGCA-------U---------------GCUGCUCCUGUGAUCCCUGUUUCCUCAGCAAUUGCUGUCC
(((((((((..((((((((((((((.....)))))(((((((((...--..)))-------)---------------)))))....)))..))))))..)))......))))))... ( -43.70)
>DroEre_CAF1 78136 93 - 1
CGGUAAGGGGGGCGGGGCACCGGUUUUGUGGGCCGGCAGCGUGUUAG--UCGCG-------U---------------GCUGCUCCUGCGAUACCUGCCUCUUCAGCAAUUGCUGUCC
......(((((((((....))(((.(((..((..((((((((((...--..)))-------)---------------))))))))..))).))).)))))))((((....))))... ( -40.70)
>DroWil_CAF1 110917 114 - 1
UGGCAAUGGCGGCGGAGCUGCUGCUCGAUGUGCUGGCAGUGUGGAAGAGGCUCCUGGCGCAUGAUUAUUGCUUGUUGGUUGCUCUAUGGAU---UGCUUGCGUAACAAUUGCUGGGC
.(((((((((((((....))))))).(.(((((.((((((.((..((((.(..(..(((((.......)))..))..)..))))).)).))---)))).))))).).)))))).... ( -36.50)
>DroYak_CAF1 89427 93 - 1
GGGCAAGGGGGGCGGGGCACCGGUUUUGUGGGCAGGCAGCGUGUUUA--UCGAC-------U---------------GCUGCUCCUGUGAUCCCUGCUUCCUCAGCAAUUGCUGUCC
((((..(((((((((((..(((......)))((((((((((.(((..--..)))-------)---------------)))))..))))...))))))))))).(((....))))))) ( -40.00)
>consensus
CGGCAAGGGGGGCGGGGCACCGGUUUUGUGGGCCGGCAGCGUGUUAG__UCGCA_______U_______________GCUGCUCCUGUGAUCCCUGCUUCCUCAGCAAUUGCUGUCC
(((((((((((((((((((((((((.....)))))(((((.....................................)))))....)))..)))))))))))......))))))... (-25.68 = -25.77 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:09 2006