Locus 3851

Sequence ID 2L_DroMel_CAF1
Location 11,278,999 – 11,279,141
Length 142
Max. P 0.716798
window6066 window6067 window6068

overview

Window 6

Location 11,278,999 – 11,279,107
Length 108
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 85.33
Mean single sequence MFE -47.42
Consensus MFE -35.17
Energy contribution -36.40
Covariance contribution 1.23
Combinations/Pair 1.24
Mean z-score -2.38
Structure conservation index 0.74
SVM decision value 0.17
SVM RNA-class probability 0.614836
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11278999 108 - 22407834
UGUUCUCCGUGAUGGUGGGCGUGUUGUUGGCCGUCGAGGCUGCAGCCUGGGCUGCCGCUAAUGCCGCAGCCUU------CUGCAUCUGCUGGUACUGCUUAACAGUCACCGUCG
..........((((((((((((...((.(((.(((.((((....)))).))).)))))..)))))((((...(------(.((....)).))..))))........))))))). ( -45.10)
>DroVir_CAF1 94348 108 - 1
UGUUUUCUGUGAUGGUUGGUGCAUUGGCAGCUG------CAGCUGCCUGUGCAGCAGCCAGGGCGGCGGCCUUUUGCUGUUGCAUUUGCUGAAACUGUUUGAUAGUAACAGUUG
.....((.(..(((((((.(((((.((((((..------..)))))).))))).))))))..((((((((.....))))))))..)..).))(((((((.......))))))). ( -50.00)
>DroSec_CAF1 111149 108 - 1
UGUUCUCCGUGAUGGUGGGCGUGUUGUUGGCCGUCGAGGCUGCAGCCUGGGCUGCCGCUAAUGCCGCAGCCUU------CUGCAUCUGCUGGUACUGCUUAACGGUCACCGUCG
..........((((((((.(((...((..((((.(.(((.(((((...(((((((.((....)).))))))).------))))))))).))))...))...))).)))))))). ( -49.70)
>DroSim_CAF1 119190 108 - 1
UGUUCUCCGUGAUGGUGGGCGUGUUGUUGGCCGUCGAGGCUGCAGCCUGGGCUGCCGCUAGUGCCGCAGCCUU------CUGCAUCUGCUGGUACUGCUUAACGGUCACCGUCG
..........((((((((.(((......(((.(((.((((....)))).))).)))((.((((((((((....------......)))).))))))))...))).)))))))). ( -49.90)
>DroEre_CAF1 113417 108 - 1
UGUUCUCCGUGAUGGUGGGCGUGUUGUUGGCCGUCGAGGACGCAGCCUGGGCUGCCGCUAAUGCCGCAGCCUU------CUGCAUCUGCUGGUACUGCUUAACGGUUACCGUCG
..........((((((((.(((...((..((((....(((.((((...(((((((.((....)).))))))).------)))).)))..))))...))...))).)))))))). ( -47.20)
>DroYak_CAF1 115278 108 - 1
UGUUCUCCGUAAUGGUGGGCGUGUUGUUGGCCGUCGAGGCUGCAGCCUGGGCUGCCGCUAAUGCCGCAGCCUU------CUGCAUCUGCUGGUACUGCUUAACGGUCACAGUCG
.((((.((.....)).))))..(((((.((((((..((((.((((...(((((((.((....)).))))))).------))))(((....)))...)))).)))))))))).). ( -42.60)
>consensus
UGUUCUCCGUGAUGGUGGGCGUGUUGUUGGCCGUCGAGGCUGCAGCCUGGGCUGCCGCUAAUGCCGCAGCCUU______CUGCAUCUGCUGGUACUGCUUAACGGUCACCGUCG
..........((((((((.(((...((..((((....((.(((((...(((((((.((....)).))))))).......))))).))..))))...))...))).)))))))). (-35.17 = -36.40 +   1.23)

alignment

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secondary structure

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dotplot

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Window 7

Location 11,279,034 – 11,279,141
Length 107
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 80.24
Mean single sequence MFE -31.44
Consensus MFE -19.77
Energy contribution -21.72
Covariance contribution 1.94
Combinations/Pair 1.05
Mean z-score -1.76
Structure conservation index 0.63
SVM decision value 0.39
SVM RNA-class probability 0.716798
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11279034 107 + 22407834
-AAGGCUGCGGCAUUAGCGGCAGCCCAGGCUGCAGCCUCGACGGCCAACAACACGCCCACCAUCACGGAGAACAUCAUUAUCCAGCAGCCCACUUCGACUACGGCGAC
-..((((((.((....)).))))))..((((((.(((.....))).....................(((...........))).))))))....(((.(....)))). ( -37.60)
>DroVir_CAF1 94388 102 + 1
AAAGGCCGCCGCCCUGGCUGCUGCACAGGCAGCUG------CAGCUGCCAAUGCACCAACCAUCACAGAAAACAUCAUCAUACAGCAACCCACAUCAACGACAGCCGU
...(((....)))..((((((((((..((((((..------..))))))..))))............((.....)).......................).))))).. ( -27.40)
>DroSim_CAF1 119225 107 + 1
-AAGGCUGCGGCACUAGCGGCAGCCCAGGCUGCAGCCUCGACGGCCAACAACACGCCCACCAUCACGGAGAACAUCAUUAUCCAGCAGCCCACUUCGACUACGGCGAC
-..((((((.((....)).))))))..((((((.(((.....))).....................(((...........))).))))))....(((.(....)))). ( -37.60)
>DroEre_CAF1 113452 107 + 1
-AAGGCUGCGGCAUUAGCGGCAGCCCAGGCUGCGUCCUCGACGGCCAACAACACGCCCACCAUCACGGAGAACAUCAUUAUCCAGCAGCCCACUUCGACUACAGCGAC
-..((((((.((....)).))))))..(((((((((...)))(((.........))).........(((...........))).))))))....(((.(....)))). ( -34.30)
>DroYak_CAF1 115313 107 + 1
-AAGGCUGCGGCAUUAGCGGCAGCCCAGGCUGCAGCCUCGACGGCCAACAACACGCCCACCAUUACGGAGAACAUCAUUAUCCAGCAACCCACUUCGACAACGGCGGC
-..((((((.((....)).))))))..((((((......).))))).......((((........(((((......................))))).....)))).. ( -31.47)
>DroAna_CAF1 106801 101 + 1
-AAGGCGGCGGCUUUGGCGGCAGCACAAGCGGCAGCAGCA------GCAAACACACCCACAAUCACGGAAAACAUCAUUAUCCAGCAGCCCACUUCAACUUCCACAAC
-..(((.((.(((...((.((.((....)).)).))...)------))..................(((...........))).)).))).................. ( -20.30)
>consensus
_AAGGCUGCGGCAUUAGCGGCAGCCCAGGCUGCAGCCUCGACGGCCAACAACACGCCCACCAUCACGGAGAACAUCAUUAUCCAGCAGCCCACUUCGACUACGGCGAC
...(((((((((....((.(((((....))))).)).......)))....................(((...........))).)))))).................. (-19.77 = -21.72 +   1.94)

alignment

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secondary structure

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dotplot

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Window 8

Location 11,279,034 – 11,279,141
Length 107
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 80.24
Mean single sequence MFE -43.02
Consensus MFE -27.91
Energy contribution -29.92
Covariance contribution 2.00
Combinations/Pair 1.25
Mean z-score -1.40
Structure conservation index 0.65
SVM decision value 0.06
SVM RNA-class probability 0.561365
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11279034 107 - 22407834
GUCGCCGUAGUCGAAGUGGGCUGCUGGAUAAUGAUGUUCUCCGUGAUGGUGGGCGUGUUGUUGGCCGUCGAGGCUGCAGCCUGGGCUGCCGCUAAUGCCGCAGCCUU-
.((((....).)))...(((((((..((((((.((((((.((.....)).))))))))))))((((.....)))))))))))(((((((.((....)).))))))).- ( -45.30)
>DroVir_CAF1 94388 102 - 1
ACGGCUGUCGUUGAUGUGGGUUGCUGUAUGAUGAUGUUUUCUGUGAUGGUUGGUGCAUUGGCAGCUG------CAGCUGCCUGUGCAGCAGCCAGGGCGGCGGCCUUU
..((((((((((...(..((..((...........))..))..)..((((((.(((((.((((((..------..)))))).))))).)))))).))))))))))... ( -49.70)
>DroSim_CAF1 119225 107 - 1
GUCGCCGUAGUCGAAGUGGGCUGCUGGAUAAUGAUGUUCUCCGUGAUGGUGGGCGUGUUGUUGGCCGUCGAGGCUGCAGCCUGGGCUGCCGCUAGUGCCGCAGCCUU-
.((((....).)))...(((((((..((((((.((((((.((.....)).))))))))))))((((.....)))))))))))(((((((.((....)).))))))).- ( -45.30)
>DroEre_CAF1 113452 107 - 1
GUCGCUGUAGUCGAAGUGGGCUGCUGGAUAAUGAUGUUCUCCGUGAUGGUGGGCGUGUUGUUGGCCGUCGAGGACGCAGCCUGGGCUGCCGCUAAUGCCGCAGCCUU-
..((((........))))((((((.(((((....)))))(((.(((((((.(((.....))).))))))).))).)))))).(((((((.((....)).))))))).- ( -48.30)
>DroYak_CAF1 115313 107 - 1
GCCGCCGUUGUCGAAGUGGGUUGCUGGAUAAUGAUGUUCUCCGUAAUGGUGGGCGUGUUGUUGGCCGUCGAGGCUGCAGCCUGGGCUGCCGCUAAUGCCGCAGCCUU-
.................(((((((..((((((.((((((.((.....)).))))))))))))((((.....)))))))))))(((((((.((....)).))))))).- ( -42.60)
>DroAna_CAF1 106801 101 - 1
GUUGUGGAAGUUGAAGUGGGCUGCUGGAUAAUGAUGUUUUCCGUGAUUGUGGGUGUGUUUGC------UGCUGCUGCCGCUUGUGCUGCCGCCAAAGCCGCCGCCUU-
...((((...........((((..((((((((.(((.....))).))))).((((..(..((------.((....)).))..)..).))).))).)))).))))...- ( -26.90)
>consensus
GUCGCCGUAGUCGAAGUGGGCUGCUGGAUAAUGAUGUUCUCCGUGAUGGUGGGCGUGUUGUUGGCCGUCGAGGCUGCAGCCUGGGCUGCCGCUAAUGCCGCAGCCUU_
.................(((((((.(((.(((...))).))).(((((((.(((.....))).))))))).....)))))))(((((((.((....)).))))))).. (-27.91 = -29.92 +   2.00)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:00 2006