Locus 7739

Sequence ID 3R_DroMel_CAF1
Location 20,781,469 – 20,781,579
Length 110
Max. P 0.999906
window12476

overview

Window 6

Location 20,781,469 – 20,781,579
Length 110
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 73.56
Mean single sequence MFE -24.52
Consensus MFE -16.29
Energy contribution -16.73
Covariance contribution 0.44
Combinations/Pair 1.16
Mean z-score -2.96
Structure conservation index 0.66
SVM decision value 4.48
SVM RNA-class probability 0.999906
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20781469 110 + 27905053
AAAAAAAAAAAAAAAACAGAUGGAGGAAAGUAAAAAGUGUCCGAUUCUAGGGCAUUCAAAGAAAUUUAAGAAUUAUGGCAUUUACCAAAACCCAAUGCCA-AUACU--UUCUC---
........................((((((((...(((((((.......)))))))...................(((((((...........)))))))-.))))--)))).--- ( -22.40)
>DroSim_CAF1 24593 103 + 1
-------AAAAAAAAAGAUAUAGAGGAAAGUAAAAAGUGUCCGAUUCUAGGGCACUCGAAGAAAUUUAAGAAUUAUGGCAUUUACCAAAACCCAAUGCCA-AUACU--UUCUC---
-------.................((((((((...(((((((.......)))))))...................(((((((...........)))))))-.))))--)))).--- ( -24.70)
>DroEre_CAF1 25308 105 + 1
-------AA-AAAAGGCAGAUGGAGGAAAGUAAAAAGUGUCCAGUUCUAGGGCACUCGAAGACAUUUGGGUAUUAUGGCAUUUACCAAGGCCUAAUGCCA-AUACU--UUGUCAUA
-------..-........((..(((....((....(((((((.......))))))).....)).....(((((((.(((..........)))))))))).-...))--)..))... ( -29.30)
>DroYak_CAF1 23401 98 + 1
-------AA-AAAAAAGGGAUAGAGGAA-------AGUGUCCAGUUCUAGGGCACUCGAAGAAAUUGCUGUAUUAUGGCAAUGUCAAUAU---CGUGUCAUAUACCUAUCAUCAUA
-------..-........(((((.....-------(((((((.......)))))))....((.((((((((...)))))))).)).....---............)))))...... ( -21.70)
>consensus
_______AA_AAAAAACAGAUAGAGGAAAGUAAAAAGUGUCCAAUUCUAGGGCACUCGAAGAAAUUUAAGAAUUAUGGCAUUUACCAAAACCCAAUGCCA_AUACU__UUCUC___
......................(((((........(((((((.......)))))))...................(((((((...........)))))))........)))))... (-16.29 = -16.73 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:18 2006