Locus 3596

Sequence ID 3R_DroMel_CAF1
Location 9,704,434 – 9,704,552
Length 118
Max. P 0.985476
window5794 window5795

overview

Window 4

Location 9,704,434 – 9,704,524
Length 90
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 89.00
Mean single sequence MFE -33.12
Consensus MFE -26.15
Energy contribution -28.43
Covariance contribution 2.28
Combinations/Pair 1.21
Mean z-score -2.26
Structure conservation index 0.79
SVM decision value 0.06
SVM RNA-class probability 0.562216
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9704434 90 + 27905053
G-CAAAUCCCCGAACUUAAACCAAGGAAAAGCCUGUGGAAAUCCGCGGGAUCUGGCCGUGGAAAUGGUCGGGCAUCUUGGCCCGAGGAUCG
.-........(((.(((...((((((.....(((((((....))))))).(((((((((....)))))))))..))))))....))).))) ( -34.80)
>DroSec_CAF1 28417 90 + 1
G-CAAAUCCCCGAACUUAAACCAAGGAAAAGCCUAUGGAAAUCCGCGGGAUCUGGCCGUGGAAAUGGUCGGGCAUCUUGGCCCGAGGAUCG
.-...(((((((........((((((.....))).)))...(((((((.......)))))))..)))((((((......)))))))))).. ( -32.60)
>DroSim_CAF1 28154 90 + 1
G-CAAAUCCCCGAACUUAAACCAAGGAAAAGCCUGUGGAAAUCCGCGGGAUCUGGCCGUGGAAAUGGUCGGGCAUCUUGGCCCGAGGAUCG
.-........(((.(((...((((((.....(((((((....))))))).(((((((((....)))))))))..))))))....))).))) ( -34.80)
>DroEre_CAF1 29609 89 + 1
G-CAAAUCCCCGAACUUAAACCAAGGGAAAGCCUGUGGAAAUCCGCGGGAUCUGGCCAUGGAAAUGGCCGGGCAUCUUG-CCCGAGGAUCG
(-(...((((..............))))..))((((((....))))))(((((((((((....))))))((((.....)-)))..))))). ( -39.14)
>DroYak_CAF1 29300 90 + 1
G-CAAAUCCCCGAACUUAAACCAAGGAAAAGCCUGUGGAAAUCCGCGGGAUCUGGCCGUGGAAAUGGUCGGGCAUCUUGGACCGAGGAUCG
.-........(((.(((...((((((.....(((((((....))))))).(((((((((....)))))))))..))))))....))).))) ( -34.80)
>DroAna_CAF1 26134 88 + 1
GGCAAAUCCCUAAACUUAAACCAUCGGCAAGCCUUUGGAAAUCCACUGGAUCUGGAUGUGGAUCU--UCGGAUCGGUUC-UGCGAGGAUCG
..((.((((...........(((..((....))..)))..((((...))))..)))).))((((.--...))))(((((-.....))))). ( -22.60)
>consensus
G_CAAAUCCCCGAACUUAAACCAAGGAAAAGCCUGUGGAAAUCCGCGGGAUCUGGCCGUGGAAAUGGUCGGGCAUCUUGGCCCGAGGAUCG
..........(((.(((...((((((.....(((((((....))))))).(((((((((....)))))))))..))))))....))).))) (-26.15 = -28.43 +   2.28)

alignment

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secondary structure

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dotplot

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Window 5

Location 9,704,462 – 9,704,552
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 89.55
Mean single sequence MFE -36.64
Consensus MFE -31.25
Energy contribution -32.62
Covariance contribution 1.36
Combinations/Pair 1.15
Mean z-score -3.02
Structure conservation index 0.85
SVM decision value 2.01
SVM RNA-class probability 0.985476
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9704462 90 + 27905053
AGCCUGUGGAAAUCCGCGGGAUCUGGCCGUGGAAAUGGUCGGGCAUCUUGGCCCGAGGAUCGGCGCAUUUAAUCCAAUUAUCGAUGGCCA
..(((((((....)))))))....((((((.((.....((((((......))))))((((..(.....)..)))).....)).)))))). ( -40.80)
>DroSec_CAF1 28445 90 + 1
AGCCUAUGGAAAUCCGCGGGAUCUGGCCGUGGAAAUGGUCGGGCAUCUUGGCCCGAGGAUCGGCGCAUUUAAUCCAAUUAUCGAUGGCCA
..((..(((....)))..))....((((((.((.....((((((......))))))((((..(.....)..)))).....)).)))))). ( -35.70)
>DroSim_CAF1 28182 90 + 1
AGCCUGUGGAAAUCCGCGGGAUCUGGCCGUGGAAAUGGUCGGGCAUCUUGGCCCGAGGAUCGGCGCAUUUAAUCCAAUUAUCGAUGGCCA
..(((((((....)))))))....((((((.((.....((((((......))))))((((..(.....)..)))).....)).)))))). ( -40.80)
>DroEre_CAF1 29637 89 + 1
AGCCUGUGGAAAUCCGCGGGAUCUGGCCAUGGAAAUGGCCGGGCAUCUUG-CCCGAGGAUCGGCGCAUUUAAUCCAAUUAUCGAUGGCCA
...((((((....))))))(((((((((((....))))))((((.....)-)))..)))))(((.((((.............))))))). ( -40.82)
>DroYak_CAF1 29328 90 + 1
AGCCUGUGGAAAUCCGCGGGAUCUGGCCGUGGAAAUGGUCGGGCAUCUUGGACCGAGGAUCGGCGCAUUUAAUCCAAUUAUCGAUGGCCA
..(((((((....)))))))....((((((.((..(((((.((....)).))))).((((..(.....)..)))).....)).)))))). ( -35.50)
>DroAna_CAF1 26163 82 + 1
AGCCUUUGGAAAUCCACUGGAUCUGGAUGUGGAUCU--UCGGAUCGGUUC-UGCGAGGAUCGACGCAUUUAAUCCAAUUAUCGAU-----
......(((....))).(((((.((((((((((((.--...))))(((((-.....)))))..))))))))))))).........----- ( -26.20)
>consensus
AGCCUGUGGAAAUCCGCGGGAUCUGGCCGUGGAAAUGGUCGGGCAUCUUGGCCCGAGGAUCGGCGCAUUUAAUCCAAUUAUCGAUGGCCA
..(((((((....)))))))....((((((.((.....((((((......))))))((((..(.....)..)))).....)).)))))). (-31.25 = -32.62 +   1.36)

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 11:05:24 2006