Locus 1368

Sequence ID 3R_DroMel_CAF1
Location 4,006,242 – 4,006,340
Length 98
Max. P 0.578763
window2256

overview

Window 6

Location 4,006,242 – 4,006,340
Length 98
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.90
Mean single sequence MFE -24.98
Consensus MFE -12.92
Energy contribution -14.20
Covariance contribution 1.28
Combinations/Pair 1.08
Mean z-score -2.44
Structure conservation index 0.52
SVM decision value 0.09
SVM RNA-class probability 0.578763
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4006242 98 + 27905053
UAGA--------------UAGC--AUAUAUGUUUGUAUAGCGAGCUG--UGUGCAUUGCACUCGUUGAUUUC---UUUUCCAAACGAUUAUUAUCAACGGGAGUUC-UGUAUUUUUUGUU
((((--------------..((--(((((.(((((.....)))))))--)))))...((.(((((((((...---...((.....)).....))))))))).))))-))........... ( -25.40)
>DroSec_CAF1 11797 98 + 1
UAGA--------------UAGC--AUAUAUGUUUGUAUAGCGAGCUG--UGUGCAUUGCACUCGUUGAUUUC---UUUUCCAAACGAUUAUUAUCAACGGGAGUUC-UGUAUUUUUUGUU
((((--------------..((--(((((.(((((.....)))))))--)))))...((.(((((((((...---...((.....)).....))))))))).))))-))........... ( -25.40)
>DroSim_CAF1 12392 98 + 1
UAGA--------------UAGC--AUAUAUGUUUGUAUAGCGAGCUG--UGUGCAUUGCACUCGUUGAUUUC---UUUUCCAAACGAUUAUUAUCAACGGGAGUUC-UGUAUUUUUUGUU
((((--------------..((--(((((.(((((.....)))))))--)))))...((.(((((((((...---...((.....)).....))))))))).))))-))........... ( -25.40)
>DroWil_CAF1 875 117 + 1
CAGAUAGUAGGGAAUGUAUAGC--AUAUAGGUAUAUAUAUCUAUCUAUGUAUGCAUUGCACUCGUUGAUUUCGAUUUUUUCA-AAGAUUUUUAUCAUCAACUGUUCGUAUACUUUUUCUU
........((..((.(((((((--(.....(((((((((......)))))))))..)))....((((((...((.....)).-..(((....)))))))))......))))).))..)). ( -23.40)
>DroYak_CAF1 11789 100 + 1
UAGA--------------UAGCACAUAUAUGUUUGUAUAGCGAGCUG--UGUGCAUUGCACUCGUUGAUUUC---UUUUCCAAACGAUUAUUAUCAACGGGAGUUC-UGUAUUUUUUGUU
((((--------------..(((((((...(((((.....)))))))--)))))...((.(((((((((...---...((.....)).....))))))))).))))-))........... ( -25.30)
>consensus
UAGA______________UAGC__AUAUAUGUUUGUAUAGCGAGCUG__UGUGCAUUGCACUCGUUGAUUUC___UUUUCCAAACGAUUAUUAUCAACGGGAGUUC_UGUAUUUUUUGUU
.................(((((...(((((....)))))....)))))..(((((..((.(((((((((.......................))))))))).))...)))))........ (-12.92 = -14.20 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:19 2006