Locus 1786

Sequence ID 2R_DroMel_CAF1
Location 6,694,142 – 6,694,239
Length 97
Max. P 0.500000
window2969

overview

Window 9

Location 6,694,142 – 6,694,239
Length 97
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 77.72
Mean single sequence MFE -17.42
Consensus MFE -12.14
Energy contribution -11.98
Covariance contribution -0.16
Combinations/Pair 1.10
Mean z-score -1.35
Structure conservation index 0.70
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6694142 97 - 20766785
GAAAAAAGCAGUGGCUGA-------------AAAAAAAAAGAAUCCAAUGUGCGCCCGCAAAAGCAAAUAAAACUUUAUCAUUUGGGGAAGCCCUGCGCUUUCAUAGACU
((((...((((.((((..-------------............(((((..(((....)))((((.........)))).....)))))..))))))))..))))....... ( -19.69)
>DroVir_CAF1 67446 85 - 1
-------------------------AGAAAAAAAAAAAAAAAACUCAACGUGCACCCGCAAAGGCAAAUAAAACUUUAUCAUUUGGGGAAGCCCUGCGCUUUCAUAGACU
-------------------------........................(((((...((....))...................(((....))))))))........... ( -12.70)
>DroSec_CAF1 42667 73 - 1
-------------------------------------AAAGAAUCCAAUGUGCGCCCGCAAAAGCAAAUAAAACUUUAUCAUUUGGGGAAGCCCUGCGCUUUCAUAGACU
-------------------------------------..........(((.((((..((....))...................(((....))).))))...)))..... ( -14.20)
>DroEre_CAF1 44348 104 - 1
------AGCAGUGGCUGAAAAGCAAAGAAAUAAAAAAAAAAAAUCCAAUGUGCGCCCGCAAAAGCAAAUAAAACUUUAUCAUUUGGGGAAGCCCUGCGCUUUCAUAGACU
------...(((.(((....)))........................(((.((((..((....))...................(((....))).))))...)))..))) ( -18.80)
>DroYak_CAF1 43116 94 - 1
------AGCAGUGGCUGAAAA----------AAAACAAAAAAAGCCAAUGUGCGCCCGCAAAAGCAAAUAAAACUUUAUCAUUUGGGGAAGCCCUGCGCUUUCAUAGACU
------.(((.(((((.....----------...........))))).)))((((..((....))...................(((....))).))))........... ( -21.69)
>consensus
______AGCAGUGGCUGA_____________AAAAAAAAAAAAUCCAAUGUGCGCCCGCAAAAGCAAAUAAAACUUUAUCAUUUGGGGAAGCCCUGCGCUUUCAUAGACU
.................................................(((((...((....))...................(((....))))))))........... (-12.14 = -11.98 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:07 2006