Locus 6454

Sequence ID 3L_DroMel_CAF1
Location 17,231,427 – 17,231,578
Length 151
Max. P 0.658256
window10380 window10381

overview

Window 0

Location 17,231,427 – 17,231,538
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.27
Mean single sequence MFE -18.19
Consensus MFE -10.04
Energy contribution -10.32
Covariance contribution 0.28
Combinations/Pair 1.11
Mean z-score -2.94
Structure conservation index 0.55
SVM decision value 0.07
SVM RNA-class probability 0.571121
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17231427 111 - 23771897
AAUUUACGAGAAAUCACGCAAUAUUUAUGCAAUCUAAAAUGGCCAAA--ACAAAGGCUGGGUCAGAAAAAA-------AAAAAAAAUGAUAGUAUAAAUGCGAAAAAAAUUAAAAUAACA
.......((....)).((((...(((((((..........((((...--.....))))..((((.......-------........)))).))))))))))).................. ( -17.96)
>DroSec_CAF1 115454 111 - 1
AAUUUACGAGAAAUCACGCAAUAUUUAUGCAAUCUAAAAUGGCCAGA--ACAAAGGCUGGGUCA--AAUAAAAG----AAAAAACAUUAUAGUAUAAAUGCGAAA-AAAUUAAAAUAACA
.......((....)).((((...(((((((..........((((...--.....))))...((.--.......)----)............)))))))))))...-.............. ( -16.10)
>DroSim_CAF1 109248 113 - 1
AAUUUACGAGAAAUCACGCAAUAUUUAUGCAAUCUAAAAUGGCCAGA--ACAAAGGCUGGGUCAGAAAAAAAAG----AAAAAAAAUUAUAGUAUAAAUGCGAAA-AAAUUAAAAUAACA
.......((....)).((((...(((((((..(((.(..(((((...--.....)))))..).)))........----((......))...)))))))))))...-.............. ( -16.10)
>DroEre_CAF1 118756 106 - 1
AAUUUACGAGAAAUCACGCAAUAUUUAUGCAAUCUAAAAUGGCCAGA--GCAAAGGCUGGCUA---AAAGGCAG-------AAAAAAGGUGCCACAAAUGCA-AA-AAAUUAAAAUAACA
.......((....))........(((.((((........(((((((.--.......)))))))---...((((.-------........)))).....))))-.)-))............ ( -21.00)
>DroYak_CAF1 121583 116 - 1
AAUUUACGAGAAAUCACGCAAUAUUUAUGCAAUCUAAAAUGGCCAGAGUGCAAAGGCUGGGUCA--CAAAACAGAACCAAAAAAAAAGAUAGUAUGAAUGCA-AA-AAAUUAAAAUAACA
.......((....))..(((...(((((((.((((.....((((..........))))((.((.--.......)).))........)))).)))))))))).-..-.............. ( -19.80)
>consensus
AAUUUACGAGAAAUCACGCAAUAUUUAUGCAAUCUAAAAUGGCCAGA__ACAAAGGCUGGGUCA__AAAAAAAG____AAAAAAAAUGAUAGUAUAAAUGCGAAA_AAAUUAAAAUAACA
.......((....))..(((...(((((((..((......))((((..........))))...............................))))))))))................... (-10.04 = -10.32 +   0.28)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,231,467 – 17,231,578
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.54
Mean single sequence MFE -18.88
Consensus MFE -15.84
Energy contribution -16.24
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 0.84
SVM decision value 0.26
SVM RNA-class probability 0.658256
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17231467 111 - 23771897
UUCGAUUUAAUUUAAGAAAUUUGCAUAAAAUAAACAUUGGAAUUUACGAGAAAUCACGCAAUAUUUAUGCAAUCUAAAAUGGCCAAA--ACAAAGGCUGGGUCAGAAAAAA-------AA
((((((((.((((.(((...(((((((((.........(.......)((....))........)))))))))))).))))((((...--.....))))))))).)))....-------.. ( -18.70)
>DroSec_CAF1 115493 112 - 1
UUCGAUUUAAUUUAAGAAAUUUGCAUAAAAUAAACAUUGGAAUUUACGAGAAAUCACGCAAUAUUUAUGCAAUCUAAAAUGGCCAGA--ACAAAGGCUGGGUCA--AAUAAAAG----AA
...(((((.((((.(((...(((((((((.........(.......)((....))........)))))))))))).))))((((...--.....))))))))).--........----.. ( -18.50)
>DroSim_CAF1 109287 114 - 1
UUCGAUUUAAUUUAAGAAAUUUGCAUAAAAUAAACAUUGGAAUUUACGAGAAAUCACGCAAUAUUUAUGCAAUCUAAAAUGGCCAGA--ACAAAGGCUGGGUCAGAAAAAAAAG----AA
((((((((.((((.(((...(((((((((.........(.......)((....))........)))))))))))).))))((((...--.....))))))))).))).......----.. ( -18.70)
>DroEre_CAF1 118793 109 - 1
UUCGAUUUAAUUUAAGAAAUUUGCAUAAAAUAAACAUUGGAAUUUACGAGAAAUCACGCAAUAUUUAUGCAAUCUAAAAUGGCCAGA--GCAAAGGCUGGCUA---AAAGGCAG------
.....................(((............(((((......((....))..(((.......)))..)))))..(((((((.--.......)))))))---....))).------ ( -20.20)
>DroYak_CAF1 121621 118 - 1
UUCGAUUUAAUUUAAGAAAUUUGCAUAAAAUAAACAUUGGAAUUUACGAGAAAUCACGCAAUAUUUAUGCAAUCUAAAAUGGCCAGAGUGCAAAGGCUGGGUCA--CAAAACAGAACCAA
(((......((((.(((...(((((((((.........(.......)((....))........)))))))))))).))))((((..(((......))).)))).--.......))).... ( -18.30)
>consensus
UUCGAUUUAAUUUAAGAAAUUUGCAUAAAAUAAACAUUGGAAUUUACGAGAAAUCACGCAAUAUUUAUGCAAUCUAAAAUGGCCAGA__ACAAAGGCUGGGUCA__AAAAAAAG____AA
...(((((.((((.(((...(((((((((.........(.......)((....))........)))))))))))).))))((((..........)))))))))................. (-15.84 = -16.24 +   0.40)

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 12:19:34 2006