Locus 2978

Sequence ID 2L_DroMel_CAF1
Location 8,517,896 – 8,518,056
Length 160
Max. P 0.653925
window4726 window4727

overview

Window 6

Location 8,517,896 – 8,518,016
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.78
Mean single sequence MFE -46.72
Consensus MFE -28.97
Energy contribution -29.52
Covariance contribution 0.55
Combinations/Pair 1.27
Mean z-score -1.63
Structure conservation index 0.62
SVM decision value 0.25
SVM RNA-class probability 0.653925
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8517896 120 + 22407834
ACUGCCCGACUUCGGCGUCCAGGGACAAUUAAAGCUGAAAAACAGCUCUGUCCUGAUUGUGGGCCUAGGCGGAUUGGGAUGUCCGGCGGCGCAAUACUUGGCGGCAGCCGGAUGCGGACA
.((((((((.((((.((((((((((((.....(((((.....))))).)))))).....)))))...).))))))))...((((((((.(((........))).).)))))))))))... ( -48.90)
>DroSec_CAF1 27220 120 + 1
ACUGCCCGACUUCGGCGUCCAGGGACAACUAAAGCUGAAAAACAGCUCUGUCCUGAUUGUGGGAAUGGGCGGAUUGGGAUGUCCCGCGGCGCAAUACUUGGCGGCAGCCGGAUGCGGACA
.....(((..((((((.....((((((.((((.((((.....))))(((((((.............)))))))))))..))))))((.((.((.....)))).)).))))))..)))... ( -47.92)
>DroSim_CAF1 26907 120 + 1
ACUGCCCGACUUCGGCGUCCAGGGACAACUAAAGCUGAAAAACAGCUCUGUCCUGAUUGUGGGAAUGGGCGGAUUGGGAUGUCCCGCGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
.(((((((..(((.(((....((((((.....(((((.....))))).))))))...))).))).)))))))...(((....)))................................... ( -34.90)
>DroEre_CAF1 26995 120 + 1
ACUGCCCGACUUCGGGGUCCAGGGACAACUAAAGCUGAAAAACAGUUCUGUCCUGAUUGUGGGCCUGGGCGGAUUGGGAUGUCCGGCGGCGCAAUACCUGGCGGCAGCCGGAUGCGGCCG
.(((((((.(....)((((((((((((.....(((((.....))))).)))))).....)))))))))))))....((.(((((((((.(((........))).).))))))))...)). ( -52.60)
>DroYak_CAF1 27849 120 + 1
ACUGCCCGACUUCGGAGUCCAGGGACAACUAAAGCUGAAGAACAGCUCUGUGUUGAUUGUGGGCCUGGGCGGAUUGGGAUGUCCGGCGGCGCAAUACUUGGCGGCAGCCGGAUGUGGACG
.(((((((.(....).(((((.((.((((((.(((((.....))))).)).)))).)).))))).)))))))......((((((((((.(((........))).).)))))))))..... ( -51.50)
>DroAna_CAF1 13212 120 + 1
UCUCCCAGAUUUCGGUGUCCAAGGCCAGUUGAGGCUAAAGAACAGUUCCGUUCUUAUCGUUGGCAUGGGAGGAUUGGGUUGUCCGGCAGCGCAGUACCUUGCUGCAGCUGGCUGCGGAAA
...(((((.((((.(((.((((((((......)))).((((((......))))))....))))))).))))..)))))...((((.(((((((((.....))))).....)))))))).. ( -44.50)
>consensus
ACUGCCCGACUUCGGCGUCCAGGGACAACUAAAGCUGAAAAACAGCUCUGUCCUGAUUGUGGGCAUGGGCGGAUUGGGAUGUCCGGCGGCGCAAUACUUGGCGGCAGCCGGAUGCGGACA
.(((((.(((.((...(((....)))..((((.((((.....))))(((((((.............))))))))))))).))).)))))((((....(((((....))))).)))).... (-28.97 = -29.52 +   0.55)

alignment

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secondary structure

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dotplot

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Window 7

Location 8,517,936 – 8,518,056
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.58
Mean single sequence MFE -51.52
Consensus MFE -37.54
Energy contribution -36.90
Covariance contribution -0.64
Combinations/Pair 1.36
Mean z-score -1.77
Structure conservation index 0.73
SVM decision value 0.24
SVM RNA-class probability 0.646657
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8517936 120 + 22407834
AACAGCUCUGUCCUGAUUGUGGGCCUAGGCGGAUUGGGAUGUCCGGCGGCGCAAUACUUGGCGGCAGCCGGAUGCGGACACUUGGGGCUUGUCGACUACGACGAGGUGGAGCGGAGCAAC
....(((((((((..(.(((...(((((.....)))))..((((((((.(((........))).).)))))))....))).)..)).(((((((....))))))).....)))))))... ( -49.20)
>DroSec_CAF1 27260 120 + 1
AACAGCUCUGUCCUGAUUGUGGGAAUGGGCGGAUUGGGAUGUCCCGCGGCGCAAUACUUGGCGGCAGCCGGAUGCGGACACUUGGGGCUUGUCGACUACGACGAGGUGGAGCGGAGCAAC
....(((((((((..(.(((..(..(.(((.....(((....)))((.((.((.....)))).)).))).)...)..))).)..)).(((((((....))))))).....)))))))... ( -44.00)
>DroEre_CAF1 27035 120 + 1
AACAGUUCUGUCCUGAUUGUGGGCCUGGGCGGAUUGGGAUGUCCGGCGGCGCAAUACCUGGCGGCAGCCGGAUGCGGCCGCCUGGGACUCAUAGACUACGACGAGGUGGAGCGGAGCAAC
....(((((((.....(((((((((..(((((.(((...(((((((((.(((........))).).))))))))))))))))..)).))))))).((((......)))).)))))))... ( -55.70)
>DroYak_CAF1 27889 120 + 1
AACAGCUCUGUGUUGAUUGUGGGCCUGGGCGGAUUGGGAUGUCCGGCGGCGCAAUACUUGGCGGCAGCCGGAUGUGGACGCUUGGGACUCAUAGACUACGACGAGGUGGAGCGGAGCAAC
....(((((((.....(((((((((..((((..(....((((((((((.(((........))).).))))))))))..))))..)).))))))).((((......)))).)))))))... ( -54.50)
>DroAna_CAF1 13252 120 + 1
AACAGUUCCGUUCUUAUCGUUGGCAUGGGAGGAUUGGGUUGUCCGGCAGCGCAGUACCUUGCUGCAGCUGGCUGCGGAAAGCUGGGUCUAAUCGACUACGACGAGGUGGAGCGGAGCAAU
....((((((((((..((((((...(((..(((((.((((.((((.(((((((((.....))))).....)))))))).)))).)))))..)))....))))))...))))))))))... ( -54.20)
>consensus
AACAGCUCUGUCCUGAUUGUGGGCCUGGGCGGAUUGGGAUGUCCGGCGGCGCAAUACUUGGCGGCAGCCGGAUGCGGACACUUGGGACUCAUCGACUACGACGAGGUGGAGCGGAGCAAC
....((((((((((..((((((...(((((...(..((.((((((.((((((...........)).))))....))))))))..).)))))....))))))..)))....)))))))... (-37.54 = -36.90 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:04 2006