Locus 2651

Sequence ID	2L_DroMel_CAF1
Location	7,412,949 – 7,413,088
Length	139
Max. P	0.812833

overview

Window 9

Location	7,412,949 – 7,413,048
Length	99
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	85.12
Mean single sequence MFE	-28.01
Consensus MFE	-21.16
Energy contribution	-22.44
Covariance contribution	1.28
Combinations/Pair	1.06
Mean z-score	-2.69
Structure conservation index	0.76
SVM decision value	0.51
SVM RNA-class probability	0.763018
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7412949 99 + 22407834
ACCGAGCAAUCCUACCCAGCGAUCGGCCAACAACAACACAAAUCGAUCACUGGAGAACGGCGAGGGCAAGCGACCCUCGCUCUCCUCCUCGUCCAAUAG
..((((.........((((.((((((................)))))).)))).....(((((((((....).))))))))......))))........ ( -30.49)
>DroSec_CAF1 7431 99 + 1
ACCCAGCAAUCCUACCCAGCGAUCGGCCAACAACAACACUAAUCGAUCACUGGAGAACGGCGAGGGCAAGCGACCCUCGCUCUCCUCCUCGUCCAACAG
...............((((.((((((................)))))).)))).....((((((((..((((.....))))....))))))))...... ( -28.99)
>DroSim_CAF1 7699 99 + 1
ACCCAGCAAUCCUACCCAGCGAUCGGCCAACAACAACACUAAUCGAUCACUGGAGAACGGCGAGGGCAAGCGACCCUCGCUCUCCUCCUCGUCCAACAG
...............((((.((((((................)))))).)))).....((((((((..((((.....))))....))))))))...... ( -28.99)
>DroEre_CAF1 10008 99 + 1
ACCCAGCAAUCCUACCCAGCGAUCAGCAAACAACAACACCAACCGAUCACUGGAAAACGGCGAGGGCAAACGACCCUCGCUCUCCUCCUCGUCCAACAG
...............((((.((((....................)))).)))).....(((((((((....).)))))))).................. ( -23.85)
>DroYak_CAF1 8148 99 + 1
AUCCAGCAAUCCUCCCCAGCGAUCAGCAAACAACAACACCAACCGAUCACUGGAGAACGGCGAGGGCAAACGACCCUCGCUCUCCUCCUCGUCCAACAG
............((.((((.((((....................)))).)))).))..(((((((((....).)))))))).................. ( -24.95)
>DroAna_CAF1 7811 96 + 1
AGCCAAUAAUCCGCCGCAACGGACGGCGGGA---AACACAAAUCGAAAUCAUGCCAAUGGCGAGGGAAAGAGGCCCUCGCUUUCAUCCUCUUCGAAUAG
.........((((((((....).))))))).---........(((((...(((.....((((((((.......))))))))..)))....))))).... ( -30.80)
>consensus
ACCCAGCAAUCCUACCCAGCGAUCGGCCAACAACAACACAAAUCGAUCACUGGAGAACGGCGAGGGCAAGCGACCCUCGCUCUCCUCCUCGUCCAACAG
...............((((.((((((................)))))).)))).....((((((((.......)))))))).................. (-21.16 = -22.44 +   1.28)

alignment

secondary structure

dotplot

Window 0

Location	7,412,976 – 7,413,088
Length	112
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	86.49
Mean single sequence MFE	-31.99
Consensus MFE	-27.13
Energy contribution	-28.63
Covariance contribution	1.50
Combinations/Pair	1.00
Mean z-score	-2.01
Structure conservation index	0.85
SVM decision value	0.65
SVM RNA-class probability	0.812833
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7412976 112 + 22407834
CAACAACAACACAAAUCGAUCACUGGAGAACGGCGAGGGCAAGCGACCCUCGCUCUCCUCCUCGUCCAAUAGCACAGAUGACUCUAUGAAGAUCGUUAAAAACGGGCGGAAG
........................((((...(((((((((....).))))))))...))))((((((.........(((((.(((....))))))))......))))))... ( -30.46)
>DroSec_CAF1 7458 112 + 1
CAACAACAACACUAAUCGAUCACUGGAGAACGGCGAGGGCAAGCGACCCUCGCUCUCCUCCUCGUCCAACAGCACGGAUGACUCUAUGAAGAUCGUUAAAAACGGCCGCAAG
............(((.(((((...((((...(((((((((....).))))))))...))))((((((........)))))).........)))))))).............. ( -34.30)
>DroSim_CAF1 7726 112 + 1
CAACAACAACACUAAUCGAUCACUGGAGAACGGCGAGGGCAAGCGACCCUCGCUCUCCUCCUCGUCCAACAGCACGGAUGACUCUAUGAAGAUCGUCAAAAACGGCCGCAAG
.................((((...((((...(((((((((....).))))))))...))))((((((........)))))).........))))(((......)))...... ( -34.10)
>DroEre_CAF1 10035 112 + 1
AAACAACAACACCAACCGAUCACUGGAAAACGGCGAGGGCAAACGACCCUCGCUCUCCUCCUCGUCCAACAGUACGGAUGACUCAAUGAAGAUCGUCAAGAACGGCCGCAAG
................(((((...(((....(((((((((....).))))))))....)))((((((........)))))).........)))))................. ( -31.10)
>DroYak_CAF1 8175 112 + 1
AAACAACAACACCAACCGAUCACUGGAGAACGGCGAGGGCAAACGACCCUCGCUCUCCUCCUCGUCCAACAGUACGGAUGACUCAAUGAAGAUCGUCAAGAACGGCCGCAAG
................(((((...((((...(((((((((....).))))))))...))))((((((........)))))).........)))))................. ( -34.20)
>DroAna_CAF1 7838 109 + 1
GGGA---AACACAAAUCGAAAUCAUGCCAAUGGCGAGGGAAAGAGGCCCUCGCUUUCAUCCUCUUCGAAUAGCACAGACGACUCCAUGAAGAUCGUGAAGAAUGGUCGCAAG
.(..---..)...............((((..((((((((.......))))))))(((((..((((((...(((......).))...))))))..)))))...))))...... ( -27.80)
>consensus
CAACAACAACACAAAUCGAUCACUGGAGAACGGCGAGGGCAAGCGACCCUCGCUCUCCUCCUCGUCCAACAGCACGGAUGACUCUAUGAAGAUCGUCAAAAACGGCCGCAAG
................(((((...((((...((((((((.......))))))))...))))((((((........)))))).........)))))................. (-27.13 = -28.63 +   1.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:50 2006