Locus 3450

Sequence ID 3R_DroMel_CAF1
Location 9,347,006 – 9,347,105
Length 99
Max. P 0.649185
window5537

overview

Window 7

Location 9,347,006 – 9,347,105
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.53
Mean single sequence MFE -29.54
Consensus MFE -23.16
Energy contribution -22.88
Covariance contribution -0.28
Combinations/Pair 1.09
Mean z-score -1.73
Structure conservation index 0.78
SVM decision value 0.24
SVM RNA-class probability 0.649185
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9347006 99 + 27905053
AA-----A------------AGGCGGCACACGGCAAAUUUGCCGGGAGUAAACGCAAGUAUAAUAACAACCGAAAGCAAGUUUUUCGGCUCAACUUG----UUGUUGUUGUGGCAGUAGG
..-----.------------..((.(((..(((((....))))).......((....))(((((((((((((((((.....)))))))......)))----)))))))))).))...... ( -27.70)
>DroPse_CAF1 111973 97 + 1
CAGGAGCA------------AGGCGGCACACGGCAAAUUUGCCGGGAGUAAACGCAAGAAUAAUAACAACCGAAAGCAAGUUUUUCGGCUCAAGUUG----UUGUUGCUGCCG-------
........------------.(((((((.(((((((....((((..((....(....)............(....).....))..)))).....)))----))))))))))).------- ( -32.90)
>DroEre_CAF1 116692 99 + 1
AA-----A------------AGGCGGCACACGGCAAAUUUGCCGGGAGUAAACGCAAGUAUAAUAACAACCGAAAGCAAGUUUUUCGGCUCAACUUG----UUGUUGUUGUGGCAGUAGG
..-----.------------..((.(((..(((((....))))).......((....))(((((((((((((((((.....)))))))......)))----)))))))))).))...... ( -27.70)
>DroYak_CAF1 117685 99 + 1
AA-----A------------AGGCGGCACACGGCAAAUUUGCCGGGAGUAAACGCAAGUAUAAUAACAACCGAAAGCAAGUUUUUCGGCUCAACUUG----UUGUUGUUGUGGCAGUAGG
..-----.------------..((.(((..(((((....))))).......((....))(((((((((((((((((.....)))))))......)))----)))))))))).))...... ( -27.70)
>DroAna_CAF1 112568 115 + 1
AA-----AGAGGUGGGUUGUGGGCGGCACACGGCAAAUUUGCCGGGAAUAAACGCAAGAAUAAUAACAACCGAAAGCAAGUUUUUCGGCUCAAGUUGCUUAUAGUUGUUGUAGUUUGAGU
..-----...(((..(((((..(((.....(((((....)))))........)))....)))))....)))(((((.....))))).((((((..(((...........)))..)))))) ( -28.32)
>DroPer_CAF1 116705 97 + 1
CAGGAGCC------------AGGCGGCACACGGCAAAUUUGCCGGGAGUAAACGCAAGAAUAAUAACAACCGAAAGCAAGUUUUUCGGCUCAAGUUG----UUGUUGCUGCCG-------
........------------.(((((((.(((((((....((((..((....(....)............(....).....))..)))).....)))----))))))))))).------- ( -32.90)
>consensus
AA_____A____________AGGCGGCACACGGCAAAUUUGCCGGGAGUAAACGCAAGAAUAAUAACAACCGAAAGCAAGUUUUUCGGCUCAACUUG____UUGUUGUUGUGGCAGUAGG
......................((((((..(((((....))))).(((....(....)...........(((((((.....))))))))))..............))))))......... (-23.16 = -22.88 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:18 2006