Locus 4220

Sequence ID 3R_DroMel_CAF1
Location 11,363,743 – 11,363,903
Length 160
Max. P 0.963930
window6820 window6821

overview

Window 0

Location 11,363,743 – 11,363,863
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.58
Mean single sequence MFE -48.86
Consensus MFE -42.84
Energy contribution -42.80
Covariance contribution -0.04
Combinations/Pair 1.17
Mean z-score -1.68
Structure conservation index 0.88
SVM decision value 1.56
SVM RNA-class probability 0.963930
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11363743 120 + 27905053
CCUUGGAUCGCAUAAAGCCCACGGGGUUGGGACUCUUCUGGAGCAACUCGAUGCGAAAGUCUAUCGGGAUAUCCUUGGCGCCUGGUGGGUGGUAGUUCCAGGUGCGGUUUGUCAGAAUCU
....(((((((((...((((((.((((.(((((((.....)))...((((((((....))..))))))...))))....)))).))))))((.....))..))))))))).......... ( -44.60)
>DroSec_CAF1 111381 120 + 1
CCUUGGAUCGCAUGAAGCCCACCGGGUUGGGACUCUUCUGGAGCAACUCGAUGCGAAAGUCUAUCGGGAUAUCCUUGGCCCCUGGUGGGUGGUAGUUCCAGGUGCGGUUCGUCAGGAUCU
(((((((((((((...(((((((((((..((.(((.....)))...((((((((....))..)))))).....))..))))..)))))))((.....))..))))))))))..))).... ( -52.30)
>DroSim_CAF1 102415 120 + 1
CCUUGGAUCGCAUGAAGCCCACCGGGUUGGGACUUUUCUGGAGCAACUCGAUGCGGAAAUCUAUUGGGAUAUCCUUGGCGCCUGGUGGGUGGUAGUUCCAGGUGCGGUUCGUCAGUAUCU
....(((((((((...(((((((((((.((((...(((..(.(((......)))((....)).)..)))..))))....)))))))))))((.....))..))))))))).......... ( -44.60)
>DroEre_CAF1 98730 120 + 1
CCUUGGACCGCAUGAAGCCCACCGGGUUGGGACUCUUCUGGAGCAGCUCGAUGCGAAAGUCUAUCGGGAUGUCCUUGGCUCCCGGCGGGUGGUAGUUCCAGGUGCGGUUCGUCAGGAUCU
(((((((((((((((..((((......))))..))..(((((((.(((((..((....))...((((((.((.....)))))))))))))....)))))))))))))))))..))).... ( -52.90)
>DroYak_CAF1 101461 120 + 1
CCUUGGACCGCAUGAAGCCGACGGGGUUGGGACUCUUCUGGAGCAACUCGAUGCGAAAGUCUAUCGGGAUGUCUUUGGCUCCUGGUGGGUGGUAGUUCCAGGUGCGGUUCGUCAGGAUCU
(((((((((((((....(((((...))))).......(((((((.(((....((....))(((((((((.((.....)))))))))))..))).)))))))))))))))))..))).... ( -49.90)
>consensus
CCUUGGAUCGCAUGAAGCCCACCGGGUUGGGACUCUUCUGGAGCAACUCGAUGCGAAAGUCUAUCGGGAUAUCCUUGGCGCCUGGUGGGUGGUAGUUCCAGGUGCGGUUCGUCAGGAUCU
....(((((((((...((((((((((..(((((((.....)))...((((((((....))..))))))...)))).....))))))))))((.....))..))))))))).......... (-42.84 = -42.80 +  -0.04)

alignment

Postscript

secondary structure

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dotplot

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Window 1

Location 11,363,783 – 11,363,903
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.25
Mean single sequence MFE -34.64
Consensus MFE -30.78
Energy contribution -30.94
Covariance contribution 0.16
Combinations/Pair 1.09
Mean z-score -1.16
Structure conservation index 0.89
SVM decision value 0.03
SVM RNA-class probability 0.549386
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11363783 120 - 27905053
UAUCUCACCGAGCAGCUGGUUUACGAUCGUCAGACAGGUCAGAUUCUGACAAACCGCACCUGGAACUACCACCCACCAGGCGCCAAGGAUAUCCCGAUAGACUUUCGCAUCGAGUUGCUC
.........((((((((.(....(((..(((......(((((...))))).....((.(((((............))))).))...((.....))....)))..)))...).)))))))) ( -35.80)
>DroSec_CAF1 111421 120 - 1
UAUCUCACCGAGCAGCUGGUUUACGAUCGCCAGACAGGACAGAUCCUGACGAACCGCACCUGGAACUACCACCCACCAGGGGCCAAGGAUAUCCCGAUAGACUUUCGCAUCGAGUUGCUC
.........((((((((.(....(((..(((...(((((....)))))..........(((((............)))))))).(((..(((....)))..))))))...).)))))))) ( -34.90)
>DroSim_CAF1 102455 120 - 1
UAUCUCACCGAGCAGCUGGUUUACGAUCGCCAGACAGGUCAGAUACUGACGAACCGCACCUGGAACUACCACCCACCAGGCGCCAAGGAUAUCCCAAUAGAUUUCCGCAUCGAGUUGCUC
.........(((((((((((((.(..((....))..)(((((...))))))))))((.(((((............))))).))...(((.(((......))).)))......)))))))) ( -36.50)
>DroEre_CAF1 98770 120 - 1
UAUCUCACCGAGCAGCUGGUUUACGAUCGCCAGACAGGUCAGAUCCUGACGAACCGCACCUGGAACUACCACCCGCCGGGAGCCAAGGACAUCCCGAUAGACUUUCGCAUCGAGCUGCUC
.........(((((((((((((.(..((....))..)(((((...))))))))))((...(((.....))).....(((((.(....)...)))))..........))....)))))))) ( -36.70)
>DroYak_CAF1 101501 120 - 1
UAUCUCACCGAGCAUCUGGUUUACGAUCGCCAGACUGGUCAGAUCCUGACGAACCGCACCUGGAACUACCACCCACCAGGAGCCAAAGACAUCCCGAUAGACUUUCGCAUCGAGUUGCUC
.........(((((.(((((((.((.((....)).))(((((...))))))))))((.(((((............))))).))...........((((.(.....)..)))))).))))) ( -29.30)
>consensus
UAUCUCACCGAGCAGCUGGUUUACGAUCGCCAGACAGGUCAGAUCCUGACGAACCGCACCUGGAACUACCACCCACCAGGAGCCAAGGAUAUCCCGAUAGACUUUCGCAUCGAGUUGCUC
.........(((((((((((((.(..((....))..)(((((...))))))))))((.(((((............))))).))...........((((.(.....)..)))))))))))) (-30.78 = -30.94 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:14 2006