Locus 5621

Sequence ID	X_DroMel_CAF1
Location	14,501,669 – 14,501,779
Length	110
Max. P	0.993374

overview

Window 4

Location	14,501,669 – 14,501,779
Length	110
Sequences	3
Columns	119
Reading direction	forward
Mean pairwise identity	77.06
Mean single sequence MFE	-30.05
Consensus MFE	-16.34
Energy contribution	-16.13
Covariance contribution	-0.21
Combinations/Pair	1.16
Mean z-score	-3.29
Structure conservation index	0.54
SVM decision value	2.39
SVM RNA-class probability	0.993374
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14501669 110 + 22224390
UGUCGCUCGUGUUCGUAUAC--GUAUACAUACAAUAUUAACACACUCGCAC-------CAGCAAAGUCUUCAAAGCAAAACAAAAGACUUUGUUAGUGUCCUCUUUAUGCGAUGUGUGA
.(((((..(((((.((((..--(((....))).)))).)))))....((((-------.(((((((((((.............))))))))))).)))).........)))))...... ( -29.02)
>DroEre_CAF1 23600 109 + 1
--ACACACGUAUU-G--UACGUGUGUAC----A-AAUUAACACACUCACACUUUGCAGCAGCCAAGUCUUCAAAGCAAAACAAAGGACUUUGUUAGUGUCCUCUUUGUGGGCUGUGUGG
--(((((((((..-.--)))))))))..----.-......(((((....((((.((....)).))))......(((...(((((((((.........)))))..))))..)))))))). ( -33.20)
>DroYak_CAF1 30607 99 + 1
UGGCACACGUAU------AC--AUAUAC----C-UAUUAACACACUCGCAC-------CAGCAAAGUCUUCAAAGCAAAACAAAAGACUUUGUUAGUGUCCUCUUUAUGUGUUGUGUGU
..((((((((((------..--..))))----.-....((((((...((((-------.(((((((((((.............))))))))))).))))........)))))))))))) ( -27.92)
>consensus
UGACACACGUAUU_G__UAC__GUAUAC____A_UAUUAACACACUCGCAC_______CAGCAAAGUCUUCAAAGCAAAACAAAAGACUUUGUUAGUGUCCUCUUUAUGCGAUGUGUGA
...(((((((((............)))).............(((((.............(((((((((((.............))))))))))))))))..............))))). (-16.34 = -16.13 +  -0.21)

alignment

secondary structure

dotplot

Window 5

Location	14,501,669 – 14,501,779
Length	110
Sequences	3
Columns	119
Reading direction	reverse
Mean pairwise identity	77.06
Mean single sequence MFE	-31.93
Consensus MFE	-15.05
Energy contribution	-15.83
Covariance contribution	0.79
Combinations/Pair	1.17
Mean z-score	-2.89
Structure conservation index	0.47
SVM decision value	0.13
SVM RNA-class probability	0.597006
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14501669 110 - 22224390
UCACACAUCGCAUAAAGAGGACACUAACAAAGUCUUUUGUUUUGCUUUGAAGACUUUGCUG-------GUGCGAGUGUGUUAAUAUUGUAUGUAUAC--GUAUACGAACACGAGCGACA
.......((((........(.(((((.((((((((((.(.....)...)))))))))).))-------))))...((((((.....((((((....)--)))))..)))))).)))).. ( -31.00)
>DroEre_CAF1 23600 109 - 1
CCACACAGCCCACAAAGAGGACACUAACAAAGUCCUUUGUUUUGCUUUGAAGACUUGGCUGCUGCAAAGUGUGAGUGUGUUAAUU-U----GUACACACGUA--C-AAUACGUGUGU--
.(((((((((.....(((((((.........)))))))(((((......)))))..))))(((....)))....)))))......-.----..(((((((((--.-..)))))))))-- ( -32.30)
>DroYak_CAF1 30607 99 - 1
ACACACAACACAUAAAGAGGACACUAACAAAGUCUUUUGUUUUGCUUUGAAGACUUUGCUG-------GUGCGAGUGUGUUAAUA-G----GUAUAU--GU------AUACGUGUGCCA
((((((....(.....)..(.(((((.((((((((((.(.....)...)))))))))).))-------))))..)))))).....-(----((((((--(.------...)))))))). ( -32.50)
>consensus
ACACACAACACAUAAAGAGGACACUAACAAAGUCUUUUGUUUUGCUUUGAAGACUUUGCUG_______GUGCGAGUGUGUUAAUA_U____GUAUAC__GUA__C_AAUACGUGUGACA
.((((((((((((..(((((((.........)))))))(((((......))))).((((...........)))))))))))..................((........)))))))... (-15.05 = -15.83 +   0.79)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:33 2006