Locus 7071

Sequence ID 3L_DroMel_CAF1
Location 19,136,296 – 19,136,446
Length 150
Max. P 0.986073
window11460 window11461

overview

Window 0

Location 19,136,296 – 19,136,416
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 74.56
Mean single sequence MFE -14.97
Consensus MFE -9.12
Energy contribution -9.69
Covariance contribution 0.56
Combinations/Pair 1.08
Mean z-score -2.25
Structure conservation index 0.61
SVM decision value 2.03
SVM RNA-class probability 0.986073
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19136296 120 + 23771897
CCUUCAAUUCUACUUACAUACUGCGUAAUCACUGCGUAAAGAUGCAUCUUUCAAAUAGAAAUUUAUACUUUAUACACUUUACUUUCUGUAAAUCAUAUUAUUUACUCUUACUAGAGUUUG
.......(((((.........((((((.....))))))((((....)))).....))))).................(((((.....)))))...........(((((....)))))... ( -13.40)
>DroSec_CAF1 23732 107 + 1
UCUUCA-UUCUACUUAUG-----------CACUACAUAAUGAUGCAUCUUUUAAACAGAAAGUUGUACUUUAUAAACUUUUCUUUCUGUAAAUCAUAUUACUUACUCUUACUAGAGUAA-
......-........(((-----------(((........).))))).......((((((((..((.........))....)))))))).............((((((....)))))).- ( -17.00)
>DroSim_CAF1 24675 108 + 1
UCCUCA-UUCUACUUAUG-----------CACUAUAUAAAUAUGCAUCUUUUAAACAGAAAGUUGUACUUUAUACACUUUUCUUUCUGUAAAUCAUAUUACUUACUCUUACUAGAGUAUG
......-........(((-----------((.(((....)))))))).......((((((((.((((.....)))).....)))))))).............((((((....)))))).. ( -18.00)
>DroEre_CAF1 17235 93 + 1
UCUUCU-UUCUACA-AUU-----------CACUUCUUUAGGAUGUAUCUUUCAAACAGAAUGUUU--------------UACUUUCUGUAUAUAAUAUUAUUUACUCUUACUUGAGUAUG
......-...((((-..(-----------(.((.....))))))))........((((((.(...--------------..).)))))).............(((((......))))).. ( -11.50)
>consensus
UCUUCA_UUCUACUUAUG___________CACUACAUAAAGAUGCAUCUUUCAAACAGAAAGUUGUACUUUAUACACUUUACUUUCUGUAAAUCAUAUUACUUACUCUUACUAGAGUAUG
......................................................((((((((...................)))))))).............(((((......))))).. ( -9.12 =  -9.69 +   0.56)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 19,136,336 – 19,136,446
Length 110
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 80.45
Mean single sequence MFE -16.55
Consensus MFE -10.98
Energy contribution -11.61
Covariance contribution 0.63
Combinations/Pair 1.12
Mean z-score -1.71
Structure conservation index 0.66
SVM decision value 0.21
SVM RNA-class probability 0.636405
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19136336 110 + 23771897
GAUGCAUCUUUCAAAUAGAAAUUUAUACUUUAUACACUUUACUUUCUGUAAAUCAUAUUAUUUACUCUUACUAGAGUUUGUC-CUUCCGAGUUUCGUGGGCUUCACCUAUU
.................(((((((.............(((((.....))))).......((..(((((....)))))..)).-.....)))))))(((((.....))))). ( -14.50)
>DroSec_CAF1 23760 102 + 1
GAUGCAUCUUUUAAACAGAAAGUUGUACUUUAUAAACUUUUCUUUCUGUAAAUCAUAUUACUUACUCUUACUAGAGUAA---------GAGUUUCGUUAGCUUCACCUAUU
((.((.........((((((((..((.........))....))))))))...........((((((((....)))))))---------)..........)).))....... ( -21.50)
>DroSim_CAF1 24703 111 + 1
UAUGCAUCUUUUAAACAGAAAGUUGUACUUUAUACACUUUUCUUUCUGUAAAUCAUAUUACUUACUCUUACUAGAGUAUGUCCCUUCCGAGUUUCGUUAGCUUCACCUAUU
...((.........((((((((.((((.....)))).....))))))))..........((.((((((....)))))).))..................)).......... ( -17.40)
>DroEre_CAF1 17262 97 + 1
GAUGUAUCUUUCAAACAGAAUGUUU--------------UACUUUCUGUAUAUAAUAUUAUUUACUCUUACUUGAGUAUGUCCUUUCCGAGUUUCGUUAGCUUCGCCUAUU
(((...........((((((.(...--------------..).)))))).............(((((......))))).))).....((((((.....))).)))...... ( -12.80)
>consensus
GAUGCAUCUUUCAAACAGAAAGUUGUACUUUAUACACUUUACUUUCUGUAAAUCAUAUUACUUACUCUUACUAGAGUAUGUC_CUUCCGAGUUUCGUUAGCUUCACCUAUU
((.((.........((((((((...................)))))))).............(((((......))))).....................)).))....... (-10.98 = -11.61 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:54 2006