Locus 5517

Sequence ID 3R_DroMel_CAF1
Location 14,521,048 – 14,521,153
Length 105
Max. P 0.809525
window9003 window9004

overview

Window 3

Location 14,521,048 – 14,521,153
Length 105
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 84.45
Mean single sequence MFE -29.12
Consensus MFE -23.27
Energy contribution -22.42
Covariance contribution -0.86
Combinations/Pair 1.35
Mean z-score -2.28
Structure conservation index 0.80
SVM decision value 0.64
SVM RNA-class probability 0.809525
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14521048 105 + 27905053
CCCAUU-----UUUUUCCUUUAGUUUCGAUCAUCUGCUGCCUGCUGUUGGGCCUGUUCCUGGCCCUCAGCUCCGCCUACAAUGGCCAAGACAUCUAUGCCGAGCCCAAUU
......-----........................(((((..((((..(((((.......))))).))))...))......((((..((....))..)))))))...... ( -25.30)
>DroSec_CAF1 17852 105 + 1
CCCAUU-----UUUCUCCUUCAGUUUCGAUCAUCUGCUGCCUGCUGUUGGGCCUGUUCCUGGCCCUCAGCUCCGCCUACAAUGGCCAGGACAUCUAUGCCGAGCCCAAUU
......-----.............((((..(((..(.(((((((((..(((((.......))))).))))...(((......))).))).)).).))).))))....... ( -27.80)
>DroSim_CAF1 17805 105 + 1
CCCAUU-----UUUCUCCUUCAGUUUCGAUCAUCUGCUGCCUGCUGUUGGGCCUGUUCCUGGCCCUCAGCUCCGCCUACAAUGGCCAGGACAUCUAUGCCGAGCCCAAUU
......-----.............((((..(((..(.(((((((((..(((((.......))))).))))...(((......))).))).)).).))).))))....... ( -27.80)
>DroEre_CAF1 17432 110 + 1
CAAUUUUCAAUUUUCUCCUGCAGUCUCCAUCAUUUGCUGCCUGCUCUUGGGCCUCUUCCUGGCCCUCAGCUCCGCCUACAAUGGCCAGGACAUCUACGCCGAGCCCAACU
...................((((.(..((.....))..).))))..((((((....((((((((..................))))))))..((......)))))))).. ( -27.97)
>DroYak_CAF1 24008 105 + 1
CAAAUU-----UUCCUUCUGCAGUCUCCCUCAUUUGCUGCCUACUGUUGGGCUUGUUCCUGGCCCUCAGCUCCGCCUACAAUGGCCAGGACAUCUACGCCGAGCCCAACU
......-----........(((((...........))))).....((((((((((.((((((((..................)))))))).........)))))))))). ( -32.87)
>DroAna_CAF1 16791 107 + 1
UUAAUU---UUUUGCCCCUUUAGGCACUCUCCUCUGCUGCCUGGUUCUGGGCCUGAUCCUGGCUCUGGCCAGCGCCUACAACGGCCAGGACAUCUACGCCGAGCCCAACU
......---............((((((........).)))))(((((..(((..((((((((((..(((....)))......))))))))..))...))))))))..... ( -33.00)
>consensus
CCAAUU_____UUUCUCCUUCAGUCUCGAUCAUCUGCUGCCUGCUGUUGGGCCUGUUCCUGGCCCUCAGCUCCGCCUACAAUGGCCAGGACAUCUACGCCGAGCCCAACU
...................................(((((..((((..(((((.......))))).))))...))......((((..((....))..)))))))...... (-23.27 = -22.42 +  -0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 14,521,048 – 14,521,153
Length 105
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 84.45
Mean single sequence MFE -34.63
Consensus MFE -24.86
Energy contribution -24.78
Covariance contribution -0.08
Combinations/Pair 1.16
Mean z-score -1.90
Structure conservation index 0.72
SVM decision value -0.05
SVM RNA-class probability 0.507482
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14521048 105 - 27905053
AAUUGGGCUCGGCAUAGAUGUCUUGGCCAUUGUAGGCGGAGCUGAGGGCCAGGAACAGGCCCAACAGCAGGCAGCAGAUGAUCGAAACUAAAGGAAAAA-----AAUGGG
..((((..(((((((...((((((.(((......))).))((((.(((((.......)))))..)))).))))....))).))))..))))........-----...... ( -35.20)
>DroSec_CAF1 17852 105 - 1
AAUUGGGCUCGGCAUAGAUGUCCUGGCCAUUGUAGGCGGAGCUGAGGGCCAGGAACAGGCCCAACAGCAGGCAGCAGAUGAUCGAAACUGAAGGAGAAA-----AAUGGG
..(..(..(((((((...((.(((.(((......)))...((((.(((((.......)))))..)))))))))....))).))))..)..)........-----...... ( -33.80)
>DroSim_CAF1 17805 105 - 1
AAUUGGGCUCGGCAUAGAUGUCCUGGCCAUUGUAGGCGGAGCUGAGGGCCAGGAACAGGCCCAACAGCAGGCAGCAGAUGAUCGAAACUGAAGGAGAAA-----AAUGGG
..(..(..(((((((...((.(((.(((......)))...((((.(((((.......)))))..)))))))))....))).))))..)..)........-----...... ( -33.80)
>DroEre_CAF1 17432 110 - 1
AGUUGGGCUCGGCGUAGAUGUCCUGGCCAUUGUAGGCGGAGCUGAGGGCCAGGAAGAGGCCCAAGAGCAGGCAGCAAAUGAUGGAGACUGCAGGAGAAAAUUGAAAAUUG
.((((.(((((((.(.....((((((((....(((......)))..))))))))..).)))...))))...))))...((..(....)..)).................. ( -33.60)
>DroYak_CAF1 24008 105 - 1
AGUUGGGCUCGGCGUAGAUGUCCUGGCCAUUGUAGGCGGAGCUGAGGGCCAGGAACAAGCCCAACAGUAGGCAGCAAAUGAGGGAGACUGCAGAAGGAA-----AAUUUG
.(((((((((......))((((((((((....(((......)))..))))))).))).))))))).....(((((..........).))))........-----...... ( -35.80)
>DroAna_CAF1 16791 107 - 1
AGUUGGGCUCGGCGUAGAUGUCCUGGCCGUUGUAGGCGCUGGCCAGAGCCAGGAUCAGGCCCAGAACCAGGCAGCAGAGGAGAGUGCCUAAAGGGGCAAAA---AAUUAA
.....(((((((((....)))).((((((.((....)).)))))))))))........((((......(((((.(......)..)))))....))))....---...... ( -35.60)
>consensus
AAUUGGGCUCGGCAUAGAUGUCCUGGCCAUUGUAGGCGGAGCUGAGGGCCAGGAACAGGCCCAACAGCAGGCAGCAGAUGAUCGAAACUGAAGGAGAAA_____AAUGGG
..((((((((......))..((((((((......(((...)))...))))))))....)))))).............................................. (-24.86 = -24.78 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:08 2006