Locus 7249

Sequence ID 3L_DroMel_CAF1
Location 19,407,969 – 19,408,083
Length 114
Max. P 0.686917
window11785 window11786

overview

Window 5

Location 19,407,969 – 19,408,065
Length 96
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 89.23
Mean single sequence MFE -15.10
Consensus MFE -12.69
Energy contribution -12.47
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -1.58
Structure conservation index 0.84
SVM decision value -0.05
SVM RNA-class probability 0.508066
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19407969 96 - 23771897
GCAAAGUCAACCACUUGACUAAAUAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAGCAGUCCGCACCGAAUUUCCUCCUCUUUCCUCAAGCUC---------
((..((((((....)))))).....((..(((((......))))).....(((((...)))))..)).........................))..--------- ( -15.80)
>DroSec_CAF1 46831 96 - 1
GCAAAGUCAACCACUUGACUAAAUAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAACAGUCCGCACCGAAUUUCCUCCUCUUUCCCCAAGCCC---------
((..((((((....))))))...(((((.(((((......)))))....)))))...........)).............................--------- ( -13.50)
>DroSim_CAF1 46994 96 - 1
GCAAAGUCAACCACUUGACUAAAUAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAGCAGUCCGCACCGAAUUUCCACCUCUUUCCCCAAGCUC---------
((..((((((....)))))).....((..(((((......))))).....(((((...)))))..)).........................))..--------- ( -15.80)
>DroEre_CAF1 43298 96 - 1
CCAAAGUCAGCCACUUGACUAAAUAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAGCAGUCCGCACCGAAUUCCCUCCUCCUUCCCCAACUUC---------
....((((((....)))))).....((..(((((......))))).....(((((...)))))..)).............................--------- ( -13.60)
>DroYak_CAF1 72955 96 - 1
CCAAAGUCAGCCACUUGACUAAAUAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAGCAGUCCGCACCGAAUUUCCUCCUCUUUCCCCAAGCUC---------
....((((((....)))))).....((..(((((......))))).....(((((...)))))..)).............................--------- ( -13.60)
>DroAna_CAF1 45675 105 - 1
CCAAAGUCAACCACUUGACUAAACAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAACAGUCCGCACGAGACUGCCACCUCUCCCCACACUCUCCGCAAUUUC
....((((((....))))))...(((((.(((((......)))))....))))).....((((((....).)))))............................. ( -18.30)
>consensus
CCAAAGUCAACCACUUGACUAAAUAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAGCAGUCCGCACCGAAUUUCCUCCUCUUUCCCCAAGCUC_________
....((((((....)))))).....((..(((((......))))).....((((.....))))..))...................................... (-12.69 = -12.47 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,407,993 – 19,408,083
Length 90
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 85.32
Mean single sequence MFE -14.18
Consensus MFE -12.69
Energy contribution -12.47
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -1.50
Structure conservation index 0.89
SVM decision value 0.32
SVM RNA-class probability 0.686917
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19407993 90 - 23771897
----CAUC-UAU------CCCCACU---CCUUGCAAAGUCAACCACUUGACUAAAUAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAGCAGUCCGCACCGA
----....-...------.......---..((((..((((((....))))))...(((((.(((((......)))))....)))))....)))).......... ( -14.60)
>DroSec_CAF1 46855 90 - 1
----CAUC-CAU------UCCCACU---CCUUGCAAAGUCAACCACUUGACUAAAUAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAACAGUCCGCACCGA
----....-...------.......---...(((..((((((....))))))...(((((.(((((......)))))....)))))...........))).... ( -14.10)
>DroSim_CAF1 47018 94 - 1
ACAAGAUU-CAU------CCCCACU---CCUUGCAAAGUCAACCACUUGACUAAAUAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAGCAGUCCGCACCGA
........-...------.......---..((((..((((((....))))))...(((((.(((((......)))))....)))))....)))).......... ( -14.60)
>DroEre_CAF1 43322 85 - 1
----CA-----U------CACCAU----CCUUCCAAAGUCAGCCACUUGACUAAAUAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAGCAGUCCGCACCGA
----..-----.------......----........((((((....)))))).....((..(((((......))))).....(((((...)))))..))..... ( -13.60)
>DroYak_CAF1 72979 91 - 1
----CAUCCCAU------CACCAUU---CCUUCCAAAGUCAGCCACUUGACUAAAUAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAGCAGUCCGCACCGA
----........------.......---........((((((....)))))).....((..(((((......))))).....(((((...)))))..))..... ( -13.60)
>DroAna_CAF1 45708 100 - 1
----CAACCGCCCAACCGAACCAUUCUCCCCCCCAAAGUCAACCACUUGACUAAACAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAACAGUCCGCACGAG
----.....((.........................((((((....))))))...(((((.(((((......)))))....)))))...........))..... ( -14.60)
>consensus
____CAUC_CAU______CACCACU___CCUUCCAAAGUCAACCACUUGACUAAAUAGCACUCAAAUUUGAUUUUGAUUUAUGCUGCCCAGCAGUCCGCACCGA
....................................((((((....)))))).....((..(((((......))))).....((((.....))))..))..... (-12.69 = -12.47 +  -0.22)

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 12:42:08 2006