Locus 1685

Sequence ID 2R_DroMel_CAF1
Location 6,378,962 – 6,379,077
Length 115
Max. P 0.711592
window2809 window2810

overview

Window 9

Location 6,378,962 – 6,379,077
Length 115
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 83.46
Mean single sequence MFE -30.40
Consensus MFE -16.06
Energy contribution -17.00
Covariance contribution 0.94
Combinations/Pair 1.12
Mean z-score -2.63
Structure conservation index 0.53
SVM decision value 0.13
SVM RNA-class probability 0.599748
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6378962 115 + 20766785
ACAUGUGUGGGGCAUCUGUAUCCAUGCCCAAGAACUGUCUGUAAGCUAUUUAUGAACCCAUCAAGUUCAUGUUCAUCGAAAACGAGCAAUGAUCUAUAGUCAAUACACAUGUC--UA
(((((((((((((((........))))))......((.(((((........((((((.......))))))((((.........)))).......))))).)).))))))))).--.. ( -31.30)
>DroSec_CAF1 19625 115 + 1
ACAUGUGUGGGGCAUCUGUAUCCAUGCCCAAGAACUGUCUGUAAGCUAUUUAUGAACCCGUCAAGUUCAUGUUCAUCGCAAACGAGUAAUGGUCUAUAGACAAUAGACAUGUC--UA
((((((.((((((((........))))))......((((((((..((((((((((((.......)))))))....(((....)))..)))))..)))))))).)).)))))).--.. ( -36.50)
>DroEre_CAF1 20836 102 + 1
ACAUGUGUGGGGCAUGUGUAUC----CCCAAGAAGUG----UAAGCUAUUUAUGAACUCAUCAAGUUCAUGUUCAUCGAAACCAAACAAUGAUCUAUAGAC-----ACAUGCC--CG
.........((((((((((...----....((((((.----...)))...((((((((.....)))))))).....................)))....))-----)))))))--). ( -26.60)
>DroYak_CAF1 20898 104 + 1
ACAUGUGUGGGGCAUGUGUAUC----CCCAAGAAGUG----UCAGCUAUUUAUGAACUCAUCAAGUUCAUAUUCAUCGAAACCGAGCAAUGAUCUAUAGGC-----ACAUGUCUCUA
((((((((((((.((....)))----)))....((.(----(((((....((((((((.....))))))))....(((....)))))..))))))....))-----))))))..... ( -27.20)
>consensus
ACAUGUGUGGGGCAUCUGUAUC____CCCAAGAACUG____UAAGCUAUUUAUGAACCCAUCAAGUUCAUGUUCAUCGAAAACGAGCAAUGAUCUAUAGAC_____ACAUGUC__UA
.(((((...((((((........)))))).(((.................(((((((.......))))))).((((.(........).)))))))...........)))))...... (-16.06 = -17.00 +   0.94)

alignment

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secondary structure

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dotplot

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Window 0

Location 6,378,962 – 6,379,077
Length 115
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 83.46
Mean single sequence MFE -29.68
Consensus MFE -19.25
Energy contribution -20.63
Covariance contribution 1.38
Combinations/Pair 1.10
Mean z-score -1.90
Structure conservation index 0.65
SVM decision value 0.38
SVM RNA-class probability 0.711592
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6378962 115 - 20766785
UA--GACAUGUGUAUUGACUAUAGAUCAUUGCUCGUUUUCGAUGAACAUGAACUUGAUGGGUUCAUAAAUAGCUUACAGACAGUUCUUGGGCAUGGAUACAGAUGCCCCACACAUGU
..--.((((((((.....((((.(.((((((........)))))).)(((((((.....)))))))..))))................((((((........)))))).)))))))) ( -30.50)
>DroSec_CAF1 19625 115 - 1
UA--GACAUGUCUAUUGUCUAUAGACCAUUACUCGUUUGCGAUGAACAUGAACUUGACGGGUUCAUAAAUAGCUUACAGACAGUUCUUGGGCAUGGAUACAGAUGCCCCACACAUGU
..--.((((((..(((((((.(((..(((..(......)..)))...(((((((.....))))))).......))).)))))))....((((((........))))))...)))))) ( -29.00)
>DroEre_CAF1 20836 102 - 1
CG--GGCAUGU-----GUCUAUAGAUCAUUGUUUGGUUUCGAUGAACAUGAACUUGAUGAGUUCAUAAAUAGCUUA----CACUUCUUGGG----GAUACACAUGCCCCACACAUGU
.(--(((((((-----((((..(((((((((........))))))..((((((((...))))))))..........----....)))...)----))..)))))))))......... ( -31.40)
>DroYak_CAF1 20898 104 - 1
UAGAGACAUGU-----GCCUAUAGAUCAUUGCUCGGUUUCGAUGAAUAUGAACUUGAUGAGUUCAUAAAUAGCUGA----CACUUCUUGGG----GAUACACAUGCCCCACACAUGU
.....((((((-----(.((((...((((((........)))))).(((((((((...))))))))).))))....----.......((((----(.........)))))))))))) ( -27.80)
>consensus
UA__GACAUGU_____GUCUAUAGAUCAUUGCUCGGUUUCGAUGAACAUGAACUUGAUGAGUUCAUAAAUAGCUUA____CACUUCUUGGG____GAUACACAUGCCCCACACAUGU
.....((((((.....(.((((.(.((((((........)))))).)(((((((.....)))))))..)))))...............((((((........))))))...)))))) (-19.25 = -20.63 +   1.38)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:36 2006