Locus 7420

Sequence ID 3R_DroMel_CAF1
Location 19,749,342 – 19,749,499
Length 157
Max. P 0.996290
window11996 window11997

overview

Window 6

Location 19,749,342 – 19,749,459
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.55
Mean single sequence MFE -36.70
Consensus MFE -28.78
Energy contribution -29.22
Covariance contribution 0.44
Combinations/Pair 1.10
Mean z-score -2.49
Structure conservation index 0.78
SVM decision value 1.80
SVM RNA-class probability 0.977845
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19749342 117 - 27905053
CCCAGUUCUUCAGCGGAUGAUCCUGCUGCAGGACAGUCAUGCAGCGAAAGUUGUACGGUUGGAAUACCAACAUGAAGUAGUAUCCCUACGGAAGAAGCUUUUAUCAAUUGAAGA---AAA
.((.(((((.((((((......)))))).)))))..(((((((((....)))))...(((((....))))))))).((((.....))))))......((((........)))).---... ( -35.90)
>DroSec_CAF1 16602 118 - 1
CCCAGUUCUUCAGCGGAUGAUCCUGCUGCAGGACGGUCAUGCAGCGAAAGUUGUACGGUUGGAAUACCAGCAUGAAGUAGUAUCCCUACGAAAGAAGCUUUUAUCAAUUGAAAA--AAAA
.((.(((((.((((((......)))))).)))))))(((((((((....))))))..(((((....))))).(((.((((.....))))(((((...))))).)))..)))...--.... ( -34.60)
>DroSim_CAF1 19408 120 - 1
CCCAGUUCUUCAGCGGAUGAUCCUGCUGCAGGACGGUCAUGCAGCGAAAGUUGUACGGUUGGAAUACCAACAUGAAGUAGUAUCCCUACGAAAGAAGCUUUUAUCAAUUGAAAAAAAAAA
.((.(((((.((((((......)))))).)))))))(((((((((....))))))..(((((....))))).(((.((((.....))))(((((...))))).)))..)))......... ( -34.60)
>DroEre_CAF1 29700 117 - 1
CCCAGUUCUUCAGCGGAUGAUCCUGCUGCAGGACGGUCAUGCAGCGAAAGUUGUACGGUUGGAAUGCCAACAUGAAGUAGUAUCCCUGAGGGAGAAGGUUUCCUCAAUUGGAAA---UAU
.((.(((((.((((((......)))))).)))))))(((((((((....)))))...(((((....))))))))).......(((.((((((((....))))))))...)))..---... ( -42.50)
>DroYak_CAF1 30143 117 - 1
CCCAGUUCUUAAGAGGAUGAUCCUGCUGCAAAACGGUCAUGCAGCGAAAGUUGUACGGUUGGAAUGCCAACAUGAAGUAGUAUCCCUGAGGACGAAGGUUUUCUCAAUAGGAAA---UAU
.....((((((((.(((((...(((((.((.........((((((....))))))..(((((....))))).)).))))))))))))((((((....))))))....)))))).---... ( -35.90)
>consensus
CCCAGUUCUUCAGCGGAUGAUCCUGCUGCAGGACGGUCAUGCAGCGAAAGUUGUACGGUUGGAAUACCAACAUGAAGUAGUAUCCCUACGGAAGAAGCUUUUAUCAAUUGAAAA___AAA
....(((((.((((((......)))))).)))))..(((((((((....)))))...(((((....))))))))).((((.....))))............................... (-28.78 = -29.22 +   0.44)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,749,379 – 19,749,499
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.17
Mean single sequence MFE -40.56
Consensus MFE -38.20
Energy contribution -38.52
Covariance contribution 0.32
Combinations/Pair 1.07
Mean z-score -1.94
Structure conservation index 0.94
SVM decision value 2.68
SVM RNA-class probability 0.996290
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19749379 120 - 27905053
ACGAUCUUGUUUAUGUAGUAAGCAUAGCUGAUGCAGCGCUCCCAGUUCUUCAGCGGAUGAUCCUGCUGCAGGACAGUCAUGCAGCGAAAGUUGUACGGUUGGAAUACCAACAUGAAGUAG
.......(((((((...)))))))..((((...))))(((....(((((.((((((......)))))).)))))..(((((((((....)))))...(((((....)))))))))))).. ( -37.60)
>DroSec_CAF1 16640 120 - 1
ACGAUCUUGUUUAUGUAGUAGGCAUAGCUGAUGCAGCGCUCCCAGUUCUUCAGCGGAUGAUCCUGCUGCAGGACGGUCAUGCAGCGAAAGUUGUACGGUUGGAAUACCAGCAUGAAGUAG
..((((..((((.((((((((((((.(((((.(.(((.......)))).)))))..)))..))))))))))))))))).((((((....))))))..(((((....)))))......... ( -42.30)
>DroSim_CAF1 19448 120 - 1
ACGAUCUUGUUUAUGUAGUAGGCAUAGCUGAUGCAGCGCUCCCAGUUCUUCAGCGGAUGAUCCUGCUGCAGGACGGUCAUGCAGCGAAAGUUGUACGGUUGGAAUACCAACAUGAAGUAG
..((((..((((.((((((((((((.(((((.(.(((.......)))).)))))..)))..))))))))))))))))).((((((....))))))..(((((....)))))......... ( -42.30)
>DroEre_CAF1 29737 120 - 1
ACGAUCUUGUUUAUGUAGUAGGCAUAGCUGAUGCAGCGCUCCCAGUUCUUCAGCGGAUGAUCCUGCUGCAGGACGGUCAUGCAGCGAAAGUUGUACGGUUGGAAUGCCAACAUGAAGUAG
..((((..((((.((((((((((((.(((((.(.(((.......)))).)))))..)))..))))))))))))))))).((((((....))))))..(((((....)))))......... ( -42.50)
>DroYak_CAF1 30180 120 - 1
ACGAUCUUGUUUAUGUAGUAGGCAUAGCUGAUGCAGCGCUCCCAGUUCUUAAGAGGAUGAUCCUGCUGCAAAACGGUCAUGCAGCGAAAGUUGUACGGUUGGAAUGCCAACAUGAAGUAG
..((((..((((.(((((((((....((((...)))).......(((((....)))))...))))))))))))))))).((((((....))))))..(((((....)))))......... ( -38.10)
>consensus
ACGAUCUUGUUUAUGUAGUAGGCAUAGCUGAUGCAGCGCUCCCAGUUCUUCAGCGGAUGAUCCUGCUGCAGGACGGUCAUGCAGCGAAAGUUGUACGGUUGGAAUACCAACAUGAAGUAG
..((((..((((.((((((((((((.(((((.(.(((.......)))).)))))..)))..))))))))))))))))).((((((....))))))..(((((....)))))......... (-38.20 = -38.52 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:34 2006