Locus 5032

Sequence ID 3R_DroMel_CAF1
Location 13,254,657 – 13,254,786
Length 129
Max. P 0.731843
window8219 window8220

overview

Window 9

Location 13,254,657 – 13,254,749
Length 92
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 80.88
Mean single sequence MFE -22.99
Consensus MFE -13.95
Energy contribution -13.98
Covariance contribution 0.03
Combinations/Pair 1.28
Mean z-score -2.02
Structure conservation index 0.61
SVM decision value 0.43
SVM RNA-class probability 0.731843
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13254657 92 - 27905053
CAGCA---------ACAUCCGAA-AAGAAGGCGAUCUUCGAGUCAAAAGUGAAUGUUGACCAGCGUUCACUUCAAGAAAUCGAGCAAUUGCAAAAUAUUGU-G
..(((---------((.((....-..)).)(((((.(((((.((..(((((((((((....)))))))))))...))..)))))..)))))......))))-. ( -21.70)
>DroPse_CAF1 18448 100 - 1
CAGCAUCGGCA---UCAUCCACAGCCGAAAGAGAUCUUUAAGUCAAAAGUGAAUGUUGACCAACAUUCACUUUAAGAAAUCGAGCAGUUGCAAAAUAUAGGUA
..((((((((.---.........)))))..((..((((.......((((((((((((....))))))))))))))))..)).......)))............ ( -26.21)
>DroEre_CAF1 6885 92 - 1
CAGCA---------GCAUCCGAA-AAGAAGGAGAUCUUCGAGCCAAAAGUGAAUGUUGACCAGCGCUCACUUCAAGAAAUCGAGCAGUUGCAAAAUCUUGU-G
..(((---------((.(((...-.....)))....(((((.(...((((((.((((....)))).))))))...)...)))))..)))))..........-. ( -22.80)
>DroYak_CAF1 14676 92 - 1
CAGCA---------GCAUCCGAA-AAGAAGGAGGUCUUCGAGUCAAAAGUGAAUGUUGACCAGCGCUCACUCUAAGAAAUCGAGCAGUUGCAAAAUAUUGU-G
..(((---------((.(((...-.....)))((((......(((....))).....))))...((((.............)))).)))))..........-. ( -21.92)
>DroAna_CAF1 31178 101 - 1
CAGCAACAGCAUCAGCAACCAAA-GAAGAGAAGAUCUUUGAGUCAAAAGUGAAUGUUGACCAGAGUUCACUUCAAGAAACCGAGCAGUUGCAAAAUAUACU-C
..(((((.((....)).......-((((.(((...(((((.(((((.........))))))))))))).)))).............)))))..........-. ( -22.60)
>DroPer_CAF1 19857 100 - 1
CAGCAUCAGCA---UCAUCCACAGCCGAAAGAGAUCUUUAAGUCAAAAGUGAAUGUUGACCAACAUUCACUUUAAGAAAUCGAGCAGUUGCAAAAUAUAGUUA
..(((...((.---((.......((..((((....))))..))..((((((((((((....))))))))))))........))))...)))............ ( -22.70)
>consensus
CAGCA_________GCAUCCAAA_AAGAAGGAGAUCUUCGAGUCAAAAGUGAAUGUUGACCAGCGUUCACUUCAAGAAAUCGAGCAGUUGCAAAAUAUAGU_G
..(((.....................((((.....)))).......(((((((((((....)))))))))))................)))............ (-13.95 = -13.98 +   0.03)

alignment

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secondary structure

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dotplot

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Window 0

Location 13,254,685 – 13,254,786
Length 101
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 82.99
Mean single sequence MFE -25.35
Consensus MFE -17.99
Energy contribution -18.22
Covariance contribution 0.22
Combinations/Pair 1.22
Mean z-score -2.02
Structure conservation index 0.71
SVM decision value 0.33
SVM RNA-class probability 0.690544
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13254685 101 - 27905053
UAAUUUCCGUUAAUGUAGCGCAUUAAUGGCGCAUCAUCAGCA---------ACAUCCGAA-AAGAAGGCGAUCUUCGAGUCAAAAGUGAAUGUUGACCAGCGUUCACUUCA
......(((((((((.....))))))))).((.......)).---------......((.-..((((.....))))...))..(((((((((((....))))))))))).. ( -27.40)
>DroPse_CAF1 18477 108 - 1
UAAUUUACCUUAAUGUAGCGCAUUAAUAGCGCAUCAUCAGCAUCGGCA---UCAUCCACAGCCGAAAGAGAUCUUUAAGUCAAAAGUGAAUGUUGACCAACAUUCACUUUA
........(((((....((((.......))))..........(((((.---.........))))).........)))))...((((((((((((....)))))))))))). ( -29.50)
>DroEre_CAF1 6913 98 - 1
UAAUUUCCAUUAAUG---CGCAUUAAUGGCGCAUCAUCAGCA---------GCAUCCGAA-AAGAAGGAGAUCUUCGAGCCAAAAGUGAAUGUUGACCAGCGCUCACUUCA
..((((((....(((---(((.......))))))........---------...((....-..)).))))))...........((((((.((((....)))).)))))).. ( -20.30)
>DroYak_CAF1 14704 101 - 1
UAAUUUCCGUUAAUGUAGCGCAUUAAUGGCGCAUCAUCAGCA---------GCAUCCGAA-AAGAAGGAGGUCUUCGAGUCAAAAGUGAAUGUUGACCAGCGCUCACUCUA
.......((((((((.....))))))))((((..........---------...(((...-.....)))((((......(((....))).....)))).))))........ ( -24.90)
>DroAna_CAF1 31206 110 - 1
UAAUUUACGUUAAUGUAGCGCAUUAAUGGCGCAUCAUCAGCAACAGCAUCAGCAACCAAA-GAAGAGAAGAUCUUUGAGUCAAAAGUGAAUGUUGACCAGAGUUCACUUCA
........(((.(((..((((.......))))..))).)))....((....)).......-((((.(((...(((((.(((((.........))))))))))))).)))). ( -24.60)
>DroPer_CAF1 19886 108 - 1
UAAUUUACCUUAAUGUAGCGCAUUAAUAGCGCAUCAUCAGCAUCAGCA---UCAUCCACAGCCGAAAGAGAUCUUUAAGUCAAAAGUGAAUGUUGACCAACAUUCACUUUA
........((((((((.((((.......)))).......((....)).---......)))..(....)......)))))...((((((((((((....)))))))))))). ( -25.40)
>consensus
UAAUUUACGUUAAUGUAGCGCAUUAAUGGCGCAUCAUCAGCA_________GCAUCCAAA_AAGAAGGAGAUCUUCGAGUCAAAAGUGAAUGUUGACCAGCGUUCACUUCA
.........((((((.....))))))((((((.......))......................((((.....))))..)))).(((((((((((....))))))))))).. (-17.99 = -18.22 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:42 2006