Locus 4840

Sequence ID X_DroMel_CAF1
Location 12,569,966 – 12,570,062
Length 96
Max. P 0.931851
window7910

overview

Window 0

Location 12,569,966 – 12,570,062
Length 96
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 68.18
Mean single sequence MFE -38.05
Consensus MFE -19.08
Energy contribution -19.84
Covariance contribution 0.75
Combinations/Pair 1.30
Mean z-score -1.98
Structure conservation index 0.50
SVM decision value 1.22
SVM RNA-class probability 0.931851
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12569966 96 + 22224390
----GUGUGUGUGGGUAAA--AGAGUGCGGGUGACGCAACAGCAACAACAAGUGCAAGUCGGCA-----GCAGAGUCGUUGGCAACUGAGUGCCGC-ACACA-ACACAC---------
----(((((((((((((..--((..(((.(....).((((.(((........))).....(((.-----.....)))))))))).))...)))).)-)))).-))))..--------- ( -32.00)
>DroVir_CAF1 39511 112 + 1
UUGUUCGUGUAUUGGUUAUGCGGCGCGCGGGUGACGCAACAGC------AAGUGCAAGGCGGCGGGCAGGCAGCGCCGUUGGCAACUGAAUACGAACGCACACUCAUGCACCACAGCA
..((((((((.(..(((..(((((((((..((..(((..(.((------....))...)..))).))..)).)))))))....)))..)))))))))(((......)))......... ( -41.20)
>DroEre_CAF1 37342 101 + 1
CUGUGUGUGUGUGGGUACA--AGAGUGCGGCUGACGCAACAGCAACAACAAGUGCAAGGCG--------GCAGAGCCGUUGGCAACUGUGUGCCGC-ACAAA-AUACACACAG-----
(((((((((((((((((((--..(((...((..((......(((........)))..(((.--------.....)))))..)).))).)))))).)-)))..-.)))))))))----- ( -43.60)
>DroMoj_CAF1 38717 109 + 1
UUGUUCGUGUAUUGGUUAAGCGGCGCGCGGGUGACGCAACAGC------AAGUGUAAGGCGGCAGGCAGGCAGCGCCGUUGGCAACUGAAUACGAA-ACAUAUACAUACACAA--GCA
.(((((((((.(..(((.(((((((((((.....)))......------...(((...((.....))..)))))))))))...)))..)))))).)-))).............--... ( -35.40)
>consensus
UUGUGCGUGUAUGGGUAAA__AGAGCGCGGGUGACGCAACAGC______AAGUGCAAGGCGGCA_____GCAGAGCCGUUGGCAACUGAAUACCAA_ACACA_ACACACACAA_____
((((((((((((((............(((.....))).............(((((...(((((...........)))))..)).))).....)))).......))))))))))..... (-19.08 = -19.84 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:19 2006