Locus 7935

Sequence ID 3L_DroMel_CAF1
Location 21,067,856 – 21,067,976
Length 120
Max. P 0.717468
window12940 window12941

overview

Window 0

Location 21,067,856 – 21,067,976
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -39.25
Consensus MFE -34.33
Energy contribution -33.95
Covariance contribution -0.38
Combinations/Pair 1.06
Mean z-score -1.60
Structure conservation index 0.87
SVM decision value 0.14
SVM RNA-class probability 0.603379
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21067856 120 + 23771897
AUUCUUCUUGACCUCCUUAACGCCUUUUGGCGUGGCCGCUGAGCUGGCAAGCUUCUUGGCCUGUGUCUGGUUAAUCUCCUCCAACUCGGCAGCUAUCUUCUGCUCGGCCGUUUGAAGGGC
.......((((((......(((((....)))))(((((..(((((....)))))..))))).......))))))..((((.(((..(((((((........)))..)))).))).)))). ( -43.30)
>DroSec_CAF1 123176 120 + 1
AUUCUUCUUGACCUCCUUAACGCCUUUUGGCGUGACCGCUGAGGAGGCGAGCUUCUUGGCCUGUGUCUGGUUAAUCUCCUCCAACUCGGCAGCUAUCUUCUGCUCGGCCGUUUGCAGGGC
......((((.(((((((((((((....)))))......))))))))))))....((((((.......))))))..((((.(((..(((((((........)))..)))).))).)))). ( -41.70)
>DroSim_CAF1 29425 120 + 1
AUUCUUCUUGACCUCCUUAACGCCUUUUGGCGUGACCGCUGAGCUGGCGAGCUUCUUGGCCUGUGUCUGGUUAAUCUCCUCCAACUCGGCAGCUAUCUUCUGCUCGGCCGUUUGCAGGGC
.......((((((......(((((....)))))((((((..((..((....)).))..))..).))).))))))..((((.(((..(((((((........)))..)))).))).)))). ( -36.50)
>DroYak_CAF1 16259 120 + 1
AUUCUUCUUGACCUCCUUAACGCCUUUUGGCGUGACGGCAGAGCUGGUGAUCUUCUUGGCUUGUGUUUGGUUAAUCUCCUCCAACUCGGCAGCUAUUUUCUGCUCGGCCGUUUGCAGGGC
.......((((((.((...(((((....)))))...))..((((..(.(.....))..))))......))))))..((((.(((..(((((((........)))..)))).))).)))). ( -35.50)
>consensus
AUUCUUCUUGACCUCCUUAACGCCUUUUGGCGUGACCGCUGAGCUGGCGAGCUUCUUGGCCUGUGUCUGGUUAAUCUCCUCCAACUCGGCAGCUAUCUUCUGCUCGGCCGUUUGCAGGGC
.......((((((......(((((....)))))(((.((..((..((....)).))..))....))).))))))..((((.(((..(((((((........)))..)))).))).)))). (-34.33 = -33.95 +  -0.38)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 1

Location 21,067,856 – 21,067,976
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 95.00
Mean single sequence MFE -38.45
Consensus MFE -32.97
Energy contribution -33.60
Covariance contribution 0.63
Combinations/Pair 1.06
Mean z-score -1.82
Structure conservation index 0.86
SVM decision value 0.39
SVM RNA-class probability 0.717468
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21067856 120 - 23771897
GCCCUUCAAACGGCCGAGCAGAAGAUAGCUGCCGAGUUGGAGGAGAUUAACCAGACACAGGCCAAGAAGCUUGCCAGCUCAGCGGCCACGCCAAAAGGCGUUAAGGAGGUCAAGAAGAAU
(.(((((....(((((.((((.......)))).(((((((.((.......)).....(((((......))))))))))))..)))))(((((....)))))...))))).)......... ( -45.80)
>DroSec_CAF1 123176 120 - 1
GCCCUGCAAACGGCCGAGCAGAAGAUAGCUGCCGAGUUGGAGGAGAUUAACCAGACACAGGCCAAGAAGCUCGCCUCCUCAGCGGUCACGCCAAAAGGCGUUAAGGAGGUCAAGAAGAAU
..(((.(((.((((..(((........)))))))..))).)))................(((......))).(((((((.((((....)(((....)))))).))))))).......... ( -34.40)
>DroSim_CAF1 29425 120 - 1
GCCCUGCAAACGGCCGAGCAGAAGAUAGCUGCCGAGUUGGAGGAGAUUAACCAGACACAGGCCAAGAAGCUCGCCAGCUCAGCGGUCACGCCAAAAGGCGUUAAGGAGGUCAAGAAGAAU
(.(((.(....(((((.((((.......)))).(((((((..(((.((..((.......))..))....))).)))))))..)))))(((((....)))))...).))).)......... ( -39.30)
>DroYak_CAF1 16259 120 - 1
GCCCUGCAAACGGCCGAGCAGAAAAUAGCUGCCGAGUUGGAGGAGAUUAACCAAACACAAGCCAAGAAGAUCACCAGCUCUGCCGUCACGCCAAAAGGCGUUAAGGAGGUCAAGAAGAAU
(.(((.(..(((((.(.((((.......)))))(((((((.((.......)).............(.....).))))))).))))).(((((....)))))...).))).)......... ( -34.30)
>consensus
GCCCUGCAAACGGCCGAGCAGAAGAUAGCUGCCGAGUUGGAGGAGAUUAACCAGACACAGGCCAAGAAGCUCGCCAGCUCAGCGGUCACGCCAAAAGGCGUUAAGGAGGUCAAGAAGAAU
(.(((.(....(((((.((((.......)))).(((((((.((.......)).......(((......)))..)))))))..)))))(((((....)))))...).))).)......... (-32.97 = -33.60 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:21 2006