Locus 3947

Sequence ID 3L_DroMel_CAF1
Location 11,454,753 – 11,454,854
Length 101
Max. P 0.500000
window6145

overview

Window 5

Location 11,454,753 – 11,454,854
Length 101
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 75.88
Mean single sequence MFE -24.21
Consensus MFE -13.97
Energy contribution -13.72
Covariance contribution -0.25
Combinations/Pair 1.14
Mean z-score -1.41
Structure conservation index 0.58
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11454753 101 + 23771897
UCCAGCUCCAUC--UGGGAGCCAAAGCACAG-AAAAUCCUUUCUUGAGCUAAUAGAAUUCAAACGCAUGAAGGCUUUGAAUAGGUUCGUUUUCGAAGGACGCCG
....(((((.((--.(.(((((..(((.(((-(((....)))).)).)))......(((((((.((......))))))))).))))).)....)).))).)).. ( -25.10)
>DroVir_CAF1 268559 82 + 1
--CA--------------------CGCACAGCCAAAUCCUUUCUCCGGCUAAUAGAAUUCAAACGCAUGAAGCCUCUGAAUAGGUUCGUUGUCGAAAGGCGACG
--((--------------------.((..((((.............))))....(....)....)).)).(((((......)))))(((((((....))))))) ( -19.32)
>DroPse_CAF1 223585 84 + 1
-------------------CCCAGAGAAGAG-AAAAUCCUUUCUGGAGCUAAUAGAAUUCAAACGCACGGAGGCUUUGAAUGGGUUCGUUUUCGAAGGACGACG
-------------------..((((((.((.-....)).))))))(((((......(((((((.((......))))))))).)))))(((.((....)).))). ( -23.00)
>DroWil_CAF1 204291 93 + 1
AGUAGCU----------GUUCGGAAGCACAG-AAAAUCCUUUCUUGGGCUAAUAGAAUUCAAACGCACGGAGGCUUUGAAUAGGUUCGUUUUCGAAGGGCAACG
.((.(((----------.(((((((((..((-(((....))))).(((((......(((((((.((......))))))))).)))))))))))))).))).)). ( -28.10)
>DroMoj_CAF1 307847 91 + 1
--CA--UCCAUU---------GAAAGCACAGCCAAAUCCUUUCUCCGGCUAAUAGAAUUCAAACGCAUGAAGCCUCUGAAUAGGUUCGUUGUCGAAAGGCGACG
--..--....((---------(((..(..((((.............))))....)..)))))........(((((......)))))(((((((....))))))) ( -20.02)
>DroAna_CAF1 169630 103 + 1
CCCUUCCCCAUUAAAGCGAACCAAAGCACAG-AAAAUCCUUUCUUGAGCUAAUAGAAUUCAAACGCAUGAAGGCUUUGAAUAGGUUCGUUUUCGAAGGACGACG
.(((((......((((((((((..(((.(((-(((....)))).)).)))......(((((((.((......))))))))).)))))))))).)))))...... ( -29.70)
>consensus
__CA__U_____________CCAAAGCACAG_AAAAUCCUUUCUUGAGCUAAUAGAAUUCAAACGCAUGAAGGCUUUGAAUAGGUUCGUUUUCGAAGGACGACG
......................................(((((..((((.(((...(((((((.((......)))))))))..))).))))..)))))...... (-13.97 = -13.72 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:41 2006