Locus 1169

Sequence ID 3L_DroMel_CAF1
Location 3,362,946 – 3,363,106
Length 160
Max. P 0.938599
window1823 window1824

overview

Window 3

Location 3,362,946 – 3,363,066
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.75
Mean single sequence MFE -41.26
Consensus MFE -37.60
Energy contribution -37.56
Covariance contribution -0.04
Combinations/Pair 1.08
Mean z-score -1.47
Structure conservation index 0.91
SVM decision value 1.27
SVM RNA-class probability 0.938599
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3362946 120 + 23771897
ACGAAGUACUAUCACGGGAUCACAGAACUCCUUGAUGUUUUCCCCACUUUGGUGGAUCUGGCAGGAUUACCCAAAUUGGACAAAUGCCAGAGCUCUCAGGAGUUGACCUGUGGCGAGGGA
........((.(((((((.(((....((((((.((........((((....)))).(((((((.......((.....)).....)))))))....))))))))))))))))))..))... ( -37.50)
>DroSec_CAF1 30104 120 + 1
GCAAAGUACUAUCACGGGAUCACAGAACUCCUGGAUGUUUUCCCCACAUUGGUGGAUCUGGCAGGAUUACCCAAAUUGCCCAAGUGCCAGAGCUCCCAGGAGUUGACCUGUGGCGAGGGA
........((.(((((((.(((....((((((((..((..(((((.....)).)))((((((.((.....)).....((....))))))))))..))))))))))))))))))..))... ( -42.10)
>DroSim_CAF1 27805 120 + 1
GCAAAAUACUAUCACGGGAUCACAGAACUCCUGGAUGUUUUCCCCACAUUGGUGGAUAUGGCAGGAUUACCCAAAUUGCCCAAGUGCCAGAGCUCCCAGGAGUUGACCUGUGGCGAGGGA
........((.(((((((.(((....((((((((..(((((((((.....)).)))..((((.((.....)).....((....))))))))))..))))))))))))))))))..))... ( -39.50)
>DroEre_CAF1 28902 120 + 1
ACCAGAUACUAUCACGGGAUCACAGAACUUCUGGAUGUUUUUCCCACUUUGGUGGACCUGGCGGGAUUACCCAAGUUGCCCAACUGCCAGAGCUCCCAGGAGUUGACCUGUGGCGAGGGA
........((.(((((((.(((....((((((((..(((....((((....))))..((((((((....))).((((....))))))))))))..))))))))))))))))))..))... ( -44.50)
>DroYak_CAF1 28687 120 + 1
GCAAGGUACUAUCACGGGAUCACAGAACUUCUGGAUGUUUUUCCCACCUUGGUGGAUCUGGCGGGAUUACCCAAAUUGCCCAACUGCCAGAGCUCCCAGGAGUUGACCUGUGGCGAGGGA
........((.(((((((.(((....((((((((..((.....((((....)))).((((((((...................))))))))))..))))))))))))))))))..))... ( -42.71)
>consensus
GCAAAGUACUAUCACGGGAUCACAGAACUCCUGGAUGUUUUCCCCACAUUGGUGGAUCUGGCAGGAUUACCCAAAUUGCCCAACUGCCAGAGCUCCCAGGAGUUGACCUGUGGCGAGGGA
........((.(((((((.(((....((((((((..((.....((((....)))).(((((((((.....))...((....)).)))))))))..))))))))))))))))))..))... (-37.60 = -37.56 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 4

Location 3,362,986 – 3,363,106
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.83
Mean single sequence MFE -35.83
Consensus MFE -27.16
Energy contribution -27.36
Covariance contribution 0.20
Combinations/Pair 1.13
Mean z-score -1.67
Structure conservation index 0.76
SVM decision value 0.13
SVM RNA-class probability 0.599747
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3362986 120 - 23771897
UACCCCUUCCCAAUCCCAUCAGCUGAUGGUAAAGACUUUUUCCCUCGCCACAGGUCAACUCCUGAGAGCUCUGGCAUUUGUCCAAUUUGGGUAAUCCUGCCAGAUCCACCAAAGUGGGGA
..((((.........(((((....))))).....(((((.......(((.((((......)))).).))(((((((.((..((.....))..))...)))))))......))))))))). ( -38.50)
>DroSec_CAF1 30144 120 - 1
UACCCCUUCCCAAUCCCAUUAGUUGAUAGUAAAGACUUUUUCCCUCGCCACAGGUCAACUCCUGGGAGCUCUGGCACUUGGGCAAUUUGGGUAAUCCUGCCAGAUCCACCAAUGUGGGGA
..((((..((((((((((..(((((((......((.........)).......)))))))..)))))((....))..)))))....((((...(((......)))...))))...)))). ( -34.42)
>DroSim_CAF1 27845 120 - 1
UACCCCUUCCCAAUCCCAUCAGCUGAUAAUAAAGACUUUUUCCCUCGCCACAGGUCAACUCCUGGGAGCUCUGGCACUUGGGCAAUUUGGGUAAUCCUGCCAUAUCCACCAAUGUGGGGA
(((((.(((((((..(((..((((((.((........)).)).....((.((((......)))))))))).)))...))))).))...))))).(((..((((((......))))))))) ( -30.90)
>DroEre_CAF1 28942 120 - 1
UACCCCUUCCUAGUCCCAUUAGUUGAUAGUAAAGACUCUUUCCCUCGCCACAGGUCAACUCCUGGGAGCUCUGGCAGUUGGGCAACUUGGGUAAUCCCGCCAGGUCCACCAAAGUGGGAA
(((((........(((((..(((((((......((.........)).......)))))))..)))))((((........)))).....))))).((((((..((....))...)))))). ( -37.62)
>DroYak_CAF1 28727 120 - 1
UACCACUUCCCAGUCCCAUUAGUUGAGGAUAAAGACUUUUUCCCUCGCCACAGGUCAACUCCUGGGAGCUCUGGCAGUUGGGCAAUUUGGGUAAUCCCGCCAGAUCCACCAAGGUGGGAA
........(((((.((((......((((..(((....)))..))))(((.((((......))))((....)))))...))))....)))))...(((((((...........))))))). ( -37.70)
>consensus
UACCCCUUCCCAAUCCCAUUAGUUGAUAGUAAAGACUUUUUCCCUCGCCACAGGUCAACUCCUGGGAGCUCUGGCACUUGGGCAAUUUGGGUAAUCCUGCCAGAUCCACCAAAGUGGGGA
......((((((.(((((..(((((((......((.........)).......)))))))..)))))..((((((..((....))...(((....)))))))))..........)))))) (-27.16 = -27.36 +   0.20)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:59 2006