Locus 5110

Sequence ID 2L_DroMel_CAF1
Location 14,535,787 – 14,535,918
Length 131
Max. P 0.950241
window8139 window8140

overview

Window 9

Location 14,535,787 – 14,535,878
Length 91
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 85.06
Mean single sequence MFE -22.89
Consensus MFE -18.84
Energy contribution -19.59
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.21
Structure conservation index 0.82
SVM decision value 1.40
SVM RNA-class probability 0.950241
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14535787 91 + 22407834
AGCCAAAA-------UCCAGCUUCCACCAGCCAACAUUCA--------------GCAUUCAGCAUUCAGUGCCAGUGACAACUUACUUUGGCAUUUGGCUGUCAACAUGCUG
........-------..((((......(((((((......--------------((.....)).....((((((((((....))))..))))))))))))).......)))) ( -24.02)
>DroSec_CAF1 67819 91 + 1
AACCGAAA-------UCCAGCUUCCACCAGCCAACAUGCA--------------GCAUUCAGCAUUCAGUGCCAGUGACAACUUACUUUGGCAUUUGGCUGUCAACAUGCUG
........-------..((((......(((((((.((((.--------------.......))))...((((((((((....))))..))))))))))))).......)))) ( -25.22)
>DroSim_CAF1 53536 91 + 1
AACCGAAA-------UCCAGCUUCCACCAGCCAACAUGCA--------------GCAUUCAGCAUUCAGUGCCAGUGACAACUUACUUUGGCAUUUGGCUGUCAACAUGCUG
........-------..((((......(((((((.((((.--------------.......))))...((((((((((....))))..))))))))))))).......)))) ( -25.22)
>DroYak_CAF1 58344 112 + 1
AACCAAAAUCCAACAUCCAACAUCCAACAUCCAACAUGCAGCAUUCAGCAUUCCGCAUUCAGCAUUCAGUACCAGUGACAACUUACUUUGGCAUUUGGCUGUCAGCAUGCUG
......................................((((((...((.....)).....((...((((...((((.(((......))).))))..))))...)))))))) ( -17.10)
>consensus
AACCAAAA_______UCCAGCUUCCACCAGCCAACAUGCA______________GCAUUCAGCAUUCAGUGCCAGUGACAACUUACUUUGGCAUUUGGCUGUCAACAUGCUG
.................((((......(((((((....................((.....)).....((((((((((....))))..))))))))))))).......)))) (-18.84 = -19.59 +   0.75)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,535,820 – 14,535,918
Length 98
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.22
Mean single sequence MFE -23.85
Consensus MFE -15.02
Energy contribution -15.18
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.49
Structure conservation index 0.63
SVM decision value 0.05
SVM RNA-class probability 0.560332
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14535820 98 - 22407834
UAAUGAAAAGUGUUUGGUCAUUUAUUGUUUAAAUGUCUGACAGCAUGUUGACAGCCAAAUGCCAAAGUAAGUUGUCAC--------UGGCACUGAAUGCUGAAUGC--------------
.........(((((..(.((((((.((((...((((......))))...))))((((..((.(((......))).)).--------))))..)))))))..)))))-------------- ( -21.30)
>DroVir_CAF1 5691 91 - 1
UAAUGAAAAGUGUUUGGUCAUUUAUUGUUUAAAUGUCUGACAGCAUGUUGACAGCCAAAUGCCAAAGUAAGUUGUCAGAC------AGAAACAGAAA-----------------------
.......(((((......))))).((((((...(((((((((((...(((.((......)).))).....))))))))))------).))))))...----------------------- ( -25.20)
>DroEre_CAF1 62933 120 - 1
UAAUGAAAAGUGUUUGGUCAUUUAUUGUUUAAAUGUCUGACAGCAUGUUGACAGCCAAAUGCCAAAGUAAGUUGUCACUGCUACACUGGCACUGAAAGCUGAAUGCCGAAUGCUGCAUGC
..(((...(((((((((.((((((...((((..((((....((((.((.((((((....(((....))).)))))))))))).....)))).))))...))))))))))))))).))).. ( -32.50)
>DroYak_CAF1 58384 112 - 1
UAAUGAAAAGUGUUUGGUCAUUUAUUGUUUAAAUGUCUGACAGCAUGCUGACAGCCAAAUGCCAAAGUAAGUUGUCAC--------UGGUACUGAAUGCUGAAUGCGGAAUGCUGAAUGC
........(((((((.(.((((((..(((((......(((((((.((((....((.....))...)))).))))))).--------......)))))..))))))).)))))))...... ( -26.12)
>DroMoj_CAF1 7668 91 - 1
UAAUGAAAAGUGUUUGGUCAUUUAUUGUUUAAAUUUCUGACAGCAUGUUGACAGCCAAAUGCCAAAGUAAGUUGUCAGAC------AGAAACAGCAA-----------------------
.......(((((......))))).((((((...(.(((((((((...(((.((......)).))).....))))))))).------).))))))...----------------------- ( -18.90)
>DroAna_CAF1 5679 88 - 1
UAAUGAAAAGUGUUUGGUCAUUUAUUGUUUAAAUGUCUGACAGCAUGUUGACAGCCAAAUGCCAAAGUAAGUUGUCAG--------UGGCACAGCA------------------------
.........(((((....((((((.....)))))).((((((((...(((.((......)).))).....))))))))--------.)))))....------------------------ ( -19.10)
>consensus
UAAUGAAAAGUGUUUGGUCAUUUAUUGUUUAAAUGUCUGACAGCAUGUUGACAGCCAAAUGCCAAAGUAAGUUGUCAC________UGGCACAGAAA_______________________
.........(((((..(.((((((.....)))))).)..)..))))..(((((((....(((....))).)))))))........................................... (-15.02 = -15.18 +   0.17)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:18 2006