Locus 8368

Sequence ID 3R_DroMel_CAF1
Location 22,322,732 – 22,322,826
Length 94
Max. P 0.518694
window13483

overview

Window 3

Location 22,322,732 – 22,322,826
Length 94
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 75.28
Mean single sequence MFE -11.40
Consensus MFE -6.56
Energy contribution -6.03
Covariance contribution -0.53
Combinations/Pair 1.21
Mean z-score -1.41
Structure conservation index 0.58
SVM decision value -0.03
SVM RNA-class probability 0.518694
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22322732 94 + 27905053
GAAAAAAGAACAUAAAGUAUUGCAAUUUAAUUUGCAUAAAUUGAGCAGGCAAAUAGCCACCCACAAUUCACAACCCACACACACGCGCACACAC-
(((.................(((((......)))))...........(((.....)))........))).........................- ( -10.00)
>DroVir_CAF1 40650 77 + 1
GCAUAAA--AAAUAAAGUAUUGCAAUUUAAUUUGCAUAAAUUGAGCCAGCAAGCGGAC--CUA--CCUAGCAGCGCACACA------------AA
((.....--...........(((((......)))))........((..((.((.(...--...--))).)).)))).....------------.. ( -11.10)
>DroGri_CAF1 39037 86 + 1
GAAUGAAC-ACAUAAAGUAUUGCAAUUUAAUUUGCAUAAAUUGAGCUAGCAAGCGGAC--CUG--ACUAGCGCCACACACACAC----ACACACA
........-...........(((((......)))))........(((((((.......--.))--.))))).............----....... ( -11.90)
>DroEre_CAF1 40910 88 + 1
AAAAAAAGAACAUAAAGUAUUGCAAUUUAAUUUGCAUAAAUUGAGCAGGCAAACAGCCACCCACAAUUUACAACCCACACACA------CACAC-
....................(((((......)))))(((((((.(..(((.....)))...).))))))).............------.....- ( -11.90)
>DroYak_CAF1 40461 88 + 1
AAAAAAAGAACAUAAAGUAUUGCAAUUUAAUUUGCAUAAAUUGAGCAGGCAAACAGCCACCCACAAUUUACAACCCACACACA------CACAC-
....................(((((......)))))(((((((.(..(((.....)))...).))))))).............------.....- ( -11.90)
>DroMoj_CAF1 41643 79 + 1
GAAAAAACAAUAUAAAGUAUUGCAAUUUAAUUUGCAUAAAUUGAGCUAGCGAGCGGAC--CAA--CCUAGCAGCGCACACC------------GA
....................(((((......))))).....((.(((.((.((.(...--...--))).))))).))....------------.. ( -11.60)
>consensus
GAAAAAAGAACAUAAAGUAUUGCAAUUUAAUUUGCAUAAAUUGAGCAAGCAAACAGAC__CCA__ACUAACAACCCACACACA______CACAC_
................((.((((..((((((((....))))))))...))))))......................................... ( -6.56 =  -6.03 +  -0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:50 2006