Locus 326

Sequence ID	2R_DroMel_CAF1
Location	2,133,788 – 2,133,882
Length	94
Max. P	0.631975

overview

Window 4

Location	2,133,788 – 2,133,882
Length	94
Sequences	3
Columns	111
Reading direction	forward
Mean pairwise identity	72.67
Mean single sequence MFE	-26.35
Consensus MFE	-14.86
Energy contribution	-18.70
Covariance contribution	3.84
Combinations/Pair	1.09
Mean z-score	-1.63
Structure conservation index	0.56
SVM decision value	0.11
SVM RNA-class probability	0.586673
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2133788 94 + 20766785
CGAAUUGGAGCCGUUCAUGCUCAAAAGGAGCGUCUAAUUACACCCCGUUU-GUUGGCAUUCGAA----AACUCGUUUCAAAAA------------AACAAAAUUGUGGAAG
..(((((((..(((((...........)))))))))))).(((....(((-(((......(((.----...))).........------------))))))...))).... ( -15.56)
>DroSec_CAF1 112489 111 + 1
GGAAUUAGAGCUGUUCUUGCUCAAAAGGACCGUUUAAUUACACCCCAUUUUUUUGAUAUUCGAUUCGCUAGUCGAUUUAGUCGAUUUGGUCCUUUGACUAAAUCGUUGGGG
..(((((((.(.((((((......)))))).))))))))...(((((.......(((..(((((......)))))....)))(((((((((....)))))))))..))))) ( -32.70)
>DroSim_CAF1 116439 111 + 1
UGAAUUGGAACCGUUCUUGCUCAAAAGGACCGUUUAAUUACACCCCAUUUUUUUGAUAUUCGAUUCGCUAGUCGAUUUAGUCGAAUUAGUCCUUUGACUAAAUCUUUGGGG
(((((((.(((.((((((......)))))).)))))))).))(((((..............(((......)))((((((((((((.......))))))))))))..))))) ( -30.80)
>consensus
CGAAUUGGAGCCGUUCUUGCUCAAAAGGACCGUUUAAUUACACCCCAUUUUUUUGAUAUUCGAUUCGCUAGUCGAUUUAGUCGA_UU_GUCCUUUGACUAAAUCGUUGGGG
..(((((((.(.((((((......)))))).))))))))...((((...............(((......)))((((((((((((.......))))))))))))...)))) (-14.86 = -18.70 +   3.84)

alignment

secondary structure

dotplot

Window 5

Location	2,133,788 – 2,133,882
Length	94
Sequences	3
Columns	111
Reading direction	reverse
Mean pairwise identity	72.67
Mean single sequence MFE	-23.07
Consensus MFE	-14.28
Energy contribution	-15.62
Covariance contribution	1.34
Combinations/Pair	1.12
Mean z-score	-1.42
Structure conservation index	0.62
SVM decision value	0.20
SVM RNA-class probability	0.631975
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2133788 94 - 20766785
CUUCCACAAUUUUGUU------------UUUUUGAAACGAGUU----UUCGAAUGCCAAC-AAACGGGGUGUAAUUAGACGCUCCUUUUGAGCAUGAACGGCUCCAAUUCG
................------------.....(((..(((((----(((..((((...(-(((.(((((((......))))))).)))).))))))).)))))...))). ( -21.20)
>DroSec_CAF1 112489 111 - 1
CCCCAACGAUUUAGUCAAAGGACCAAAUCGACUAAAUCGACUAGCGAAUCGAAUAUCAAAAAAAUGGGGUGUAAUUAAACGGUCCUUUUGAGCAAGAACAGCUCUAAUUCC
(((((.((((((((((.............))))))))))......((........)).......)))))...........((.......((((.......)))).....)) ( -24.52)
>DroSim_CAF1 116439 111 - 1
CCCCAAAGAUUUAGUCAAAGGACUAAUUCGACUAAAUCGACUAGCGAAUCGAAUAUCAAAAAAAUGGGGUGUAAUUAAACGGUCCUUUUGAGCAAGAACGGUUCCAAUUCA
.......(((((((((.((.......)).))))))))).....(.((((((....((((((....(((.(((......))).))))))))).......)))))))...... ( -23.50)
>consensus
CCCCAACGAUUUAGUCAAAGGAC_AA_UCGACUAAAUCGACUAGCGAAUCGAAUAUCAAAAAAAUGGGGUGUAAUUAAACGGUCCUUUUGAGCAAGAACGGCUCCAAUUCA
......((((((((((.............))))))))))...........((((...........(((.(((......))).)))....((((.......))))..)))). (-14.28 = -15.62 +   1.34)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:38 2006