Locus 4041

Sequence ID 2R_DroMel_CAF1
Location 13,338,847 – 13,338,941
Length 94
Max. P 0.649617
window6511

overview

Window 1

Location 13,338,847 – 13,338,941
Length 94
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 81.48
Mean single sequence MFE -33.22
Consensus MFE -21.70
Energy contribution -21.17
Covariance contribution -0.53
Combinations/Pair 1.21
Mean z-score -1.73
Structure conservation index 0.65
SVM decision value 0.24
SVM RNA-class probability 0.649617
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13338847 94 - 20766785
UGGCCUU-------AACAAAUGCGCGCCAAACAAAAGACUUAGGCAGCGAACUUGUUCGCAGCGUGGGUGUUGAAAGGCAACGCGUUGCGCCCAC--ACAAUA----
.(((...-------(((((...((((((..............))).)))...))))).((((((((..((((....)))).)))))))))))...--......---- ( -32.04)
>DroPse_CAF1 35231 94 - 1
UCGCUUUGGCGGGCCGCAAUUGCGCGCCAAACAAAAGACUUUGGCUACGAACUUGUUCGCUGUGUGGGUGUUGAAAGGCAACGCGUUGCGAG---------UG----
((((....))))((((((((..(((((((((........))))))..((((....))))..)))..)((((((.....)))))).))))).)---------).---- ( -32.10)
>DroEre_CAF1 39020 94 - 1
UGGCCUU-------AACAAAUGCGCGCCAAACAAAAGACUUAGGCAGCGAACUUGUUCGCCGCGUGGGUGUUGAAAGGCAACGCGUUGCGCCCAC--ACAACG----
.(((...-------(((((...((((((..............))).)))...))))).)))(.((((((((.....(....).....))))))))--.)....---- ( -32.84)
>DroYak_CAF1 39697 96 - 1
UGGCCUU-------AGCAAAUGCGCGCCAAACAAAAGACUUAGGCAGCGAACUUGUUCGCUGCGUGGGUGUUGAAAGGCAACGCGUUGCGCCCACACACAAUG----
((((...-------.((....))..))))..............((((((((....))))))))((((((((.....(....).....))))))))........---- ( -38.30)
>DroAna_CAF1 38001 98 - 1
UGGUCUC-------AACAAAUGCGCGCCAAACAAAAGACUUAGGCAGCGAACUUGUUGGUUGCGUGGGUGUUGAAAGGCAACGCGUUGCGCCCAC--ACACUUAGGU
.....((-------(((((...((((((..............))).)))...))))))).((.((((((((.....(....).....))))))))--.))....... ( -31.94)
>DroPer_CAF1 35481 94 - 1
UCGCUUUGGCGGGCCGCAAUUGCGCGCCAAACAAAAGACUUUGGCUACGAACUUGUUCGCUGUGUGGGUGUUGAAAGGCAACGCGUUGCGAG---------UG----
((((....))))((((((((..(((((((((........))))))..((((....))))..)))..)((((((.....)))))).))))).)---------).---- ( -32.10)
>consensus
UGGCCUU_______AACAAAUGCGCGCCAAACAAAAGACUUAGGCAGCGAACUUGUUCGCUGCGUGGGUGUUGAAAGGCAACGCGUUGCGCCCAC__ACAAUG____
.(((...........((((...((((((..............))).)))...))))..((.(((((..((((....)))).))))).)))))............... (-21.70 = -21.17 +  -0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:15 2006