Locus 1786

Sequence ID 3R_DroMel_CAF1
Location 5,115,210 – 5,115,328
Length 118
Max. P 0.949663
window2943

overview

Window 3

Location 5,115,210 – 5,115,328
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.28
Mean single sequence MFE -34.43
Consensus MFE -27.48
Energy contribution -27.92
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -2.35
Structure conservation index 0.80
SVM decision value 1.39
SVM RNA-class probability 0.949663
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5115210 118 + 27905053
UUAUGUUGGCGGUAUCAUCGGUGGUCGUAAAA-CGCGGGGGAGAGCAAAUGAAGCAUCCUGCAUAAAAACAAAAAGUCCAAACGGGCUUAAGCACCUGCAGAAAACACCA-GCAACAAUG
...((((((.(...((...((((.........-.((((((....((.......)).))))))...........((((((....))))))...))))....))...).)))-)))...... ( -30.70)
>DroSec_CAF1 16855 118 + 1
UUAUGUUGGUGGUAUCAUCGGUGGUCGUAGAA-CGCGGGGCAGACCAAAUGAAGCAUCCUGCAUAAAAACAAAAAGUCCAAACGGGCUUAAGCACCUGCAGAAAACACCA-GCAACAAUC
...((((((((((.((((...(((((((.(..-..)...)).))))).)))).))...(((((..........((((((....)))))).......)))))....)))))-)))...... ( -34.73)
>DroSim_CAF1 17383 118 + 1
UUAUGUUGGUGGUAUCAUCGGUGGUCGUAAAA-CGCGGGGCGGAGCAAAGGAAGCAUCCUGCAUAAAAAGAAAAAGUCCAAACGGGCUUAAGCACCUGCAGAAAACACCA-GCAACAAUG
...(((((((((.((((....)))))......-.((((((((((((.......)).)))..............((((((....))))))..)).)))))......)))))-)))...... ( -36.60)
>DroEre_CAF1 18269 117 + 1
UUAUGCUGGUGGUAUCAUCGGCGGUCGUAAAA-CGCGGGGC-GAGCAAAUGAAGCAUCCUGCAUAAAAACAAAAAGUCCGAACGGGCUUAAGCACCUGCAGAAAACACCA-GCAACAAUG
...((((((((...((....((((..((....-.((((((.-..((.......)).))))))...........((((((....))))))..))..)))).))...)))))-)))...... ( -37.80)
>DroYak_CAF1 18186 119 + 1
UUAUGUUGGUGGUAUCAUCGGUGGUCGUAAAAGCGCGGGGC-GAGCAAAUGAAGCAUCCUGCAUAAAAACAAAAAGUCCAAACGGGCUUAAGCACCUGCAGAAAACACCAGGCAACAAUG
...((((((((....))))((((.((((....))(((((((-..(((.(((...)))..)))...........((((((....))))))..)).))))).))...))))....))))... ( -32.30)
>consensus
UUAUGUUGGUGGUAUCAUCGGUGGUCGUAAAA_CGCGGGGC_GAGCAAAUGAAGCAUCCUGCAUAAAAACAAAAAGUCCAAACGGGCUUAAGCACCUGCAGAAAACACCA_GCAACAAUG
...((((((((...((...((((...........((((((....((.......)).))))))...........((((((....))))))...))))....))...))))).)))...... (-27.48 = -27.92 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:29 2006