Locus 6649

Sequence ID 3L_DroMel_CAF1
Location 17,707,624 – 17,707,756
Length 132
Max. P 0.913268
window10811 window10812 window10813

overview

Window 1

Location 17,707,624 – 17,707,719
Length 95
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 85.03
Mean single sequence MFE -27.10
Consensus MFE -18.48
Energy contribution -18.93
Covariance contribution 0.45
Combinations/Pair 1.10
Mean z-score -2.43
Structure conservation index 0.68
SVM decision value 0.54
SVM RNA-class probability 0.776140
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17707624 95 + 23771897
UUAAUAUUUGUCUAGGCACAAUUUAUUAUUGUGUUUCGCUCAGCCGUGGCGAGGGUAAUAUUUCAGGUGGAUUGCCA-----UUGCCACUGAAGAAUUUU
..........((((((((((((.....))))))))).........(((((((.((((((...........)))))).-----)))))))...)))..... ( -24.80)
>DroSec_CAF1 82624 94 + 1
UCAAUAUUUGUCUAGGCACAAUUUAUUAUUGUGUUUUGCUCAGCCGUGGCGAUGAAAAUAUUUGUG------UGCCUCCUAGGAGGCACUGAAGAAUUUU
(((...((..((.(((((((((.....)))))))))......((....))))..)).........(------((((((....))))))))))........ ( -27.50)
>DroSim_CAF1 79380 94 + 1
UCAAUAUUUGUCUAGGCACAAUUUAUUAUUGUGUUUCGCUCAGCCGUGGCGAGGAAAAUAUUUGUG------UGCCUCCUAGGAGGCACUGAAGAAUUUU
..(((((((.(((.((((((((.....))))))))(((((.......)))))))))))))))...(------((((((....)))))))........... ( -29.00)
>consensus
UCAAUAUUUGUCUAGGCACAAUUUAUUAUUGUGUUUCGCUCAGCCGUGGCGAGGAAAAUAUUUGUG______UGCCUCCUAGGAGGCACUGAAGAAUUUU
..(((((((.(((.((((((((.....))))))))(((((.......)))))))))))))))..........((((((....))))))............ (-18.48 = -18.93 +   0.45)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,707,624 – 17,707,719
Length 95
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 85.03
Mean single sequence MFE -22.73
Consensus MFE -14.91
Energy contribution -15.47
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -3.15
Structure conservation index 0.66
SVM decision value 1.09
SVM RNA-class probability 0.913268
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17707624 95 - 23771897
AAAAUUCUUCAGUGGCAA-----UGGCAAUCCACCUGAAAUAUUACCCUCGCCACGGCUGAGCGAAACACAAUAAUAAAUUGUGCCUAGACAAAUAUUAA
....(((((((((.(...-----((((.......................))))).)))))).))).((((((.....))))))................ ( -16.30)
>DroSec_CAF1 82624 94 - 1
AAAAUUCUUCAGUGCCUCCUAGGAGGCA------CACAAAUAUUUUCAUCGCCACGGCUGAGCAAAACACAAUAAUAAAUUGUGCCUAGACAAAUAUUGA
...........(((((((....))))))------)...(((((((((.((((....)).))......((((((.....))))))....)).))))))).. ( -24.70)
>DroSim_CAF1 79380 94 - 1
AAAAUUCUUCAGUGCCUCCUAGGAGGCA------CACAAAUAUUUUCCUCGCCACGGCUGAGCGAAACACAAUAAUAAAUUGUGCCUAGACAAAUAUUGA
...........(((((((....))))))------).(((....(((((((((....)).))).))))((((((.....))))))............))). ( -27.20)
>consensus
AAAAUUCUUCAGUGCCUCCUAGGAGGCA______CACAAAUAUUUUCCUCGCCACGGCUGAGCGAAACACAAUAAUAAAUUGUGCCUAGACAAAUAUUGA
............((((((....))))))..........((((((...(((((....)).))).....((((((.....))))))........)))))).. (-14.91 = -15.47 +   0.56)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,707,657 – 17,707,756
Length 99
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 76.55
Mean single sequence MFE -22.62
Consensus MFE -13.51
Energy contribution -14.07
Covariance contribution 0.56
Combinations/Pair 1.17
Mean z-score -2.01
Structure conservation index 0.60
SVM decision value 0.90
SVM RNA-class probability 0.878024
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17707657 99 - 23771897
UAUAGUAAUGUACAAGCA-UAUUGUGUUUUACGCUGU-AAAAAUUCUUCAGUGGCAA-----UGGCAAUCCACCUGAAAUAUUACCCUCGCCACGGCUGAGCGAAA
....((((..(((((...-..)))))..)))).....-.....(((((((((.(...-----((((.......................))))).)))))).))). ( -19.00)
>DroSec_CAF1 82657 95 - 1
CAUAGUAAUGCACUAAUAAAAUUCUGU-----ACUGUGAAAAAUUCUUCAGUGCCUCCUAGGAGGCA------CACAAAUAUUUUCAUCGCCACGGCUGAGCAAAA
........(((................-----...(((((((........(((((((....))))))------).......))))))).((....))...)))... ( -22.66)
>DroSim_CAF1 79413 95 - 1
CAUAGUAAUGCACUAAUAAAAUUCUGU-----ACUGUGAAAAAUUCUUCAGUGCCUCCUAGGAGGCA------CACAAAUAUUUUCCUCGCCACGGCUGAGCGAAA
(((((((...................)-----))))))............(((((((....))))))------)........(((((((((....)).))).)))) ( -26.21)
>consensus
CAUAGUAAUGCACUAAUAAAAUUCUGU_____ACUGUGAAAAAUUCUUCAGUGCCUCCUAGGAGGCA______CACAAAUAUUUUCCUCGCCACGGCUGAGCGAAA
((((((.....((............)).....)))))).............((((((....))))))..............((((.(((((....)).))).)))) (-13.51 = -14.07 +   0.56)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:29 2006