Locus 7875

Sequence ID 3R_DroMel_CAF1
Location 21,081,194 – 21,081,292
Length 98
Max. P 0.663406
window12687 window12688

overview

Window 7

Location 21,081,194 – 21,081,292
Length 98
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 86.39
Mean single sequence MFE -33.23
Consensus MFE -26.83
Energy contribution -27.20
Covariance contribution 0.37
Combinations/Pair 1.29
Mean z-score -2.03
Structure conservation index 0.81
SVM decision value 0.27
SVM RNA-class probability 0.663406
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21081194 98 + 27905053
AGGAGAAGCCAAUUAAAGGCUUUGGAGAUGCCUUUAAGCCUAAGGCAGGCAGUUGGAACUGCCAAGCCUGCUAUACCAACAAUGGCCAGGAUCAGCUC
....((((((.......)))))).(((.((((((.......))))))((((((....))))))...((((((((.......)))).)))).....))) ( -32.10)
>DroSec_CAF1 5261 98 + 1
AGGAGAAGCCAAUGAAGGGCUUUGGAGACGCCUUUAAGCCUAAGGCAGGCAGUUGGAACUGCCAAGCCUGCUAUACCAGCAAUGGCCAGGAUCAGCUC
..((...((((.....((((((.(....)(((((.......))))).((((((....))))))))))))(((.....)))..)))).....))..... ( -32.90)
>DroSim_CAF1 5255 98 + 1
AGGAGAAGCCAAUGAAGGGCUUUGGAGACGCCUUUAAGCCUAAGGCAGGCAGUUGGAACUGUCAAGCCUGCUAUACCAGCAAUGGCCAGGAACAGCUC
..(((...((.(((..((((((.(....)(((((.......))))).((((((....))))))))))))..))).(((....)))...)).....))) ( -30.10)
>DroEre_CAF1 5917 98 + 1
AGGAGAAGCCAAUAAAGGGCUUUGGAGAUGCCUUCAAGCCCAAGGCAGGCAGUUGGAACUGCCAGGCCUGCUAUACCAGCAAUGACCAGGAUAAGCUG
.((...(((.......((((((.((((....)))))))))).((((.((((((....))))))..)))))))....((....)).))........... ( -34.40)
>DroWil_CAF1 6028 98 + 1
ACAAGAAGCCUGUUGUGGGCUUUGGUGAUGCCUUCAAGCCUGUGUCAGGCAGUUGGAAUUGUGAGAGCUGCUAUACCAACAAUGGAGCAGGACAACUU
.......(((((.((..(((((.((.....))...)))))..)).)))))(((((.....((....))((((...(((....)))))))...))))). ( -31.60)
>DroYak_CAF1 5896 98 + 1
AGGAGAAGCCAAUAAAGGGCUUUGGGGAUGCCUUCAAGCCCAAGGCAGGCAGUUGGAACUGCCAGGCCUGCUAUACCAGCAAUGGCCAGGAUCAGCUU
.((.....))......((((((..(((...)))..)))))).((((.((((((....)))))).((((((((.....))))..)))).......)))) ( -38.30)
>consensus
AGGAGAAGCCAAUAAAGGGCUUUGGAGAUGCCUUCAAGCCUAAGGCAGGCAGUUGGAACUGCCAAGCCUGCUAUACCAGCAAUGGCCAGGAUCAGCUC
.((...(((.......((((((.((((....)))))))))).((((.((((((....))))))..)))))))...(((....)))))........... (-26.83 = -27.20 +   0.37)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,081,194 – 21,081,292
Length 98
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 86.39
Mean single sequence MFE -32.35
Consensus MFE -24.49
Energy contribution -25.02
Covariance contribution 0.53
Combinations/Pair 1.15
Mean z-score -2.35
Structure conservation index 0.76
SVM decision value 0.07
SVM RNA-class probability 0.567802
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21081194 98 - 27905053
GAGCUGAUCCUGGCCAUUGUUGGUAUAGCAGGCUUGGCAGUUCCAACUGCCUGCCUUAGGCUUAAAGGCAUCUCCAAAGCCUUUAAUUGGCUUCUCCU
((((..((((((((((....)))).....((((..((((((....)))))).))))))))..(((((((.........)))))))))..))))..... ( -35.90)
>DroSec_CAF1 5261 98 - 1
GAGCUGAUCCUGGCCAUUGCUGGUAUAGCAGGCUUGGCAGUUCCAACUGCCUGCCUUAGGCUUAAAGGCGUCUCCAAAGCCCUUCAUUGGCUUCUCCU
((((..((...((((..(((((...)))))(((..((((((....)))))).)))...))))....(((.........)))....))..))))..... ( -33.30)
>DroSim_CAF1 5255 98 - 1
GAGCUGUUCCUGGCCAUUGCUGGUAUAGCAGGCUUGACAGUUCCAACUGCCUGCCUUAGGCUUAAAGGCGUCUCCAAAGCCCUUCAUUGGCUUCUCCU
((((((((...((((..(((((...))))))))).)))))))).....(((((((...)))....)))).......(((((.......)))))..... ( -30.40)
>DroEre_CAF1 5917 98 - 1
CAGCUUAUCCUGGUCAUUGCUGGUAUAGCAGGCCUGGCAGUUCCAACUGCCUGCCUUGGGCUUGAAGGCAUCUCCAAAGCCCUUUAUUGGCUUCUCCU
...........((.....((..(((....((((..((((((....)))))).)))).((((((...((.....)).))))))..)))..))....)). ( -33.60)
>DroWil_CAF1 6028 98 - 1
AAGUUGUCCUGCUCCAUUGUUGGUAUAGCAGCUCUCACAAUUCCAACUGCCUGACACAGGCUUGAAGGCAUCACCAAAGCCCACAACAGGCUUCUUGU
.((((((.((((((((....)))...))))).....)))))).(((..(((((.....(((((...((.....)).))))).....)))))...))). ( -25.50)
>DroYak_CAF1 5896 98 - 1
AAGCUGAUCCUGGCCAUUGCUGGUAUAGCAGGCCUGGCAGUUCCAACUGCCUGCCUUGGGCUUGAAGGCAUCCCCAAAGCCCUUUAUUGGCUUCUCCU
((((..((...((((..(((((...))))))))).((((((....))))))......((((((...((....))..))))))...))..))))..... ( -35.40)
>consensus
GAGCUGAUCCUGGCCAUUGCUGGUAUAGCAGGCCUGGCAGUUCCAACUGCCUGCCUUAGGCUUAAAGGCAUCUCCAAAGCCCUUAAUUGGCUUCUCCU
..(((......((((..(((((...)))))(((..((((((....)))))).)))...))))....))).......(((((.......)))))..... (-24.49 = -25.02 +   0.53)

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 12:56:56 2006