Locus 3072

Sequence ID 3R_DroMel_CAF1
Location 8,104,644 – 8,104,754
Length 110
Max. P 0.528521
window4989

overview

Window 9

Location 8,104,644 – 8,104,754
Length 110
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.40
Mean single sequence MFE -32.24
Consensus MFE -23.98
Energy contribution -24.02
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.56
Structure conservation index 0.74
SVM decision value -0.01
SVM RNA-class probability 0.528521
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8104644 110 + 27905053
AAACGGGGCUGCCAGAGAGAGACAUCUAGCGGUGUUAAUAAAAACCCAGCCAGCCAAAUGCUUUUUGU-UCCU--UUUCGGCCGCCUUUA------UGGGGCAGAAA-AAAGGCAAACGA
...((.(((((.(.(..(((....)))..)((.(((......))))).).)))))........(((((-(..(--((((.(((.((....------.))))).))))-)..)))))))). ( -31.40)
>DroSec_CAF1 56389 111 + 1
AAACGGGGCUGCCAGAGAGAGACAUCUAGCGGUGUUAAUAAAAAGCCAGCCAGCCAAAUGCUUUUUGU-UCCU--UUUCAGCCGCCUUUA------UGGGGCAGAAAAAAAGGCAAACGA
...((.(((((.(.(..(((....)))..)(((...........))).).)))))...((((((((..-....--((((.(((.((....------.))))).))))))))))))..)). ( -30.00)
>DroSim_CAF1 28466 111 + 1
AAACGGGGCUGCCAGAGAGAGACAUCUAGCGGUGUUAAUAAAAAGCCAGCCAGCCAAAUGCUUUUUGU-UCCC--UUUCGGCCGCCUUUA------UGGGGCAGAAAAAAAGGCAAACGA
......(..((((.(((((.((((((....))))))((((((((((.............)))))))))-)..)--)))).(((.((....------.))))).........))))..).. ( -31.52)
>DroEre_CAF1 31345 109 + 1
AAACGGGGCUGCCAGAGAGAGACAUCUAGCGGUGUUAAUAAAAAGC----CAGCCAAAUGCCUUUUUUCCCUUCCUUUCAGCCGACUUUG------UGGGGCAGAAA-AAAGGCAAUCGA
...(((((((((.....(..((((((....))))))..).....).----)))))...(((((((((((..((((...(((......)))------.))))..))))-))))))).))). ( -32.70)
>DroYak_CAF1 24866 113 + 1
AAACGGGGCUGCCAGAGAGAGACAUCUAGCGGUGUUAAUAAAAAGC----CAGCCAAAUGCUUUUUUCUUCUU--UUUCAGCCGCCUUUGCCUUUAUGGGGCAGAAA-AAAGGCAAACGA
...((.(((((..(((((((((((((....))))))...(((((((----.........))))))))).))))--)..)))))((((((((((.....)))))....-.)))))...)). ( -35.60)
>consensus
AAACGGGGCUGCCAGAGAGAGACAUCUAGCGGUGUUAAUAAAAAGCCAGCCAGCCAAAUGCUUUUUGU_UCCU__UUUCAGCCGCCUUUA______UGGGGCAGAAA_AAAGGCAAACGA
...((.(((((.(.....).((((((....))))))..............)))))...(((((((..........((((.(((.((...........))))).)))).)))))))..)). (-23.98 = -24.02 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:25 2006