Locus 5140

Sequence ID 3R_DroMel_CAF1
Location 13,528,384 – 13,528,475
Length 91
Max. P 0.999654
window8389 window8390

overview

Window 9

Location 13,528,384 – 13,528,475
Length 91
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 68.42
Mean single sequence MFE -19.83
Consensus MFE -9.51
Energy contribution -9.74
Covariance contribution 0.23
Combinations/Pair 1.12
Mean z-score -3.39
Structure conservation index 0.48
SVM decision value 3.84
SVM RNA-class probability 0.999654
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13528384 91 + 27905053
AGAGUGUUUAACUAGCUAUAACUAUUUAUCUAGUUA-------AAAGUAUUAGUAUUUUAAAGCAACUAAACCUUUUGCUAAGAAUACCACUCAAGUA
.((((((((((((((.((........)).)))))))-------)).......(((((((..(((((.........))))).))))))))))))..... ( -21.70)
>DroSec_CAF1 3170 70 + 1
AGAGUGGUUAGCUAGCUAUAACUAUGCUUCUAGUUA-------AAA---------------------UAAACCCUUUGCUAAGAAUACCACUCAAGUA
.(((((((...(((((..((((((......))))))-------.((---------------------........))))).))...)))))))..... ( -17.20)
>DroEre_CAF1 3065 96 + 1
AGAGAGGUAAACUAGCUAUAAACAUUCUCCUAGUUGGUACGUUAAAACA--UGUAAUUUUAACCAACUAAACCCUUAGCUAAGAAUACCACUCAAGUG
.(((.((((..(((((((............((((((((((((......)--))).......))))))))......))))).))..)))).)))..... ( -20.58)
>consensus
AGAGUGGUUAACUAGCUAUAACUAUUCUUCUAGUUA_______AAA__A___GUA_UUU_AA_CAACUAAACCCUUUGCUAAGAAUACCACUCAAGUA
.(((((((.((((((..............))))))......................................(((....)))...)))))))..... ( -9.51 =  -9.74 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,528,384 – 13,528,475
Length 91
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 68.42
Mean single sequence MFE -21.83
Consensus MFE -9.98
Energy contribution -12.27
Covariance contribution 2.28
Combinations/Pair 1.12
Mean z-score -2.95
Structure conservation index 0.46
SVM decision value 2.45
SVM RNA-class probability 0.994096
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13528384 91 - 27905053
UACUUGAGUGGUAUUCUUAGCAAAAGGUUUAGUUGCUUUAAAAUACUAAUACUUU-------UAACUAGAUAAAUAGUUAUAGCUAGUUAAACACUCU
.....(((((......((((((((((..(((((...........)))))..))))-------)(((((......)))))...))))).....))))). ( -19.80)
>DroSec_CAF1 3170 70 - 1
UACUUGAGUGGUAUUCUUAGCAAAGGGUUUA---------------------UUU-------UAACUAGAAGCAUAGUUAUAGCUAGCUAACCACUCU
.....(((((((.....((((....((((..---------------------...-------((((((......)))))).)))).))))))))))). ( -19.10)
>DroEre_CAF1 3065 96 - 1
CACUUGAGUGGUAUUCUUAGCUAAGGGUUUAGUUGGUUAAAAUUACA--UGUUUUAACGUACCAACUAGGAGAAUGUUUAUAGCUAGUUUACCUCUCU
.....(((.((((..((.(((((..((((((((((((((((((....--.))))))....))))))))))......))..)))))))..)))).))). ( -26.60)
>consensus
UACUUGAGUGGUAUUCUUAGCAAAGGGUUUAGUUG_UU_AAA_UAC___U__UUU_______UAACUAGAAGAAUAGUUAUAGCUAGUUAACCACUCU
.....(((((((....(((((......((((((((((.......................))))))))))....((....)))))))...))))))). ( -9.98 = -12.27 +   2.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:23 2006