Locus 774

Sequence ID X_DroMel_CAF1
Location 2,150,813 – 2,150,904
Length 91
Max. P 0.718290
window1258 window1259

overview

Window 8

Location 2,150,813 – 2,150,904
Length 91
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 79.97
Mean single sequence MFE -17.64
Consensus MFE -13.10
Energy contribution -13.38
Covariance contribution 0.28
Combinations/Pair 1.12
Mean z-score -1.35
Structure conservation index 0.74
SVM decision value 0.39
SVM RNA-class probability 0.718290
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2150813 91 + 22224390
UGUGUGCGAGCACAAAGAGACAAUGCAAAUUUGCACUCAAACAAAGAGAGA-----------GCGAGUGCAA--GUGCGAGUGCGAG-AGAAAGGGAA---------GAGUUCA
..((..(..((((.....(......)....((((((((.............-----------..))))))))--))))..)..))..-..........---------....... ( -20.56)
>DroSec_CAF1 30988 79 + 1
UGUGUGCGAGCACAAAGAGACGAUGCAAAUUUGCACUCAAACAAAGAGA-------------------------GUGCGAGUGCGAG-AGAAAGGGAA---------GAGUUCA
(((((....))))).........((((...((((((((.........))-------------------------)))))).))))..-..........---------....... ( -18.90)
>DroSim_CAF1 28489 79 + 1
UGUGUGCGAGCACAAAGAGACAAUGCAAAUUUGCACUCAAACAAAGAGA-------------------------GUGCGAGUGCGAG-AGAAAGGGAA---------GAGUUCA
(((((....))))).........((((...((((((((.........))-------------------------)))))).))))..-..........---------....... ( -18.90)
>DroEre_CAF1 32104 79 + 1
UGUGUGCGAGCACAAAGAGACAAUGCAAAUUUGCACUCAAACAAAGAGA-------------------------AUGCGAGUGCGAG-AGAAAGGGAA---------GAGUUCA
(((((....)))))...............(((((((((...........-------------------------....)))))))))-..........---------....... ( -15.06)
>DroYak_CAF1 34232 78 + 1
UGU-UGCGAGCACAAAGAGACAAUGCAAAUUUGCACUCAAACAAAGAGA-------------------------GUGCGAGUGCGAG-AGAAAGGGAA---------GAGUUCA
(.(-(((..(((...........)))..((((((((((.........))-------------------------)))))))))))).-).........---------....... ( -17.30)
>DroAna_CAF1 37614 113 + 1
CGUG-GCAAUCACAAAGAGACAAUGCAAAUUUGCACUCAAACAAAGAGACAAACAAGAUGAGACGAGCGAUGGUGUGGGAGGGUGAGGAGAUGGGGAAGUGGGGGAGCAGUUCA
(.(.-((..(((((.........((((....))))(((.......))).........................)))))....)).).).......(((.((......)).))). ( -15.10)
>consensus
UGUGUGCGAGCACAAAGAGACAAUGCAAAUUUGCACUCAAACAAAGAGA_________________________GUGCGAGUGCGAG_AGAAAGGGAA_________GAGUUCA
..(((((..((((..........((((....))))(((.......)))..........................))))..)))))............................. (-13.10 = -13.38 +   0.28)

alignment

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secondary structure

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dotplot

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Window 9

Location 2,150,813 – 2,150,904
Length 91
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 79.97
Mean single sequence MFE -14.95
Consensus MFE -8.14
Energy contribution -8.50
Covariance contribution 0.36
Combinations/Pair 1.08
Mean z-score -1.98
Structure conservation index 0.54
SVM decision value 0.18
SVM RNA-class probability 0.620361
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2150813 91 - 22224390
UGAACUC---------UUCCCUUUCU-CUCGCACUCGCAC--UUGCACUCGC-----------UCUCUCUUUGUUUGAGUGCAAAUUUGCAUUGUCUCUUUGUGCUCGCACACA
.......---------..........-.........(((.--(((((((((.-----------.(.......)..)))))))))...)))..........((((....)))).. ( -18.70)
>DroSec_CAF1 30988 79 - 1
UGAACUC---------UUCCCUUUCU-CUCGCACUCGCAC-------------------------UCUCUUUGUUUGAGUGCAAAUUUGCAUCGUCUCUUUGUGCUCGCACACA
.......---------..........-...(((((((.((-------------------------.......)).)))))))..................((((....)))).. ( -15.60)
>DroSim_CAF1 28489 79 - 1
UGAACUC---------UUCCCUUUCU-CUCGCACUCGCAC-------------------------UCUCUUUGUUUGAGUGCAAAUUUGCAUUGUCUCUUUGUGCUCGCACACA
.......---------..........-...(((((((.((-------------------------.......)).)))))))..................((((....)))).. ( -15.60)
>DroEre_CAF1 32104 79 - 1
UGAACUC---------UUCCCUUUCU-CUCGCACUCGCAU-------------------------UCUCUUUGUUUGAGUGCAAAUUUGCAUUGUCUCUUUGUGCUCGCACACA
.......---------..........-...(((((((((.-------------------------......)))..))))))..................((((....)))).. ( -14.10)
>DroYak_CAF1 34232 78 - 1
UGAACUC---------UUCCCUUUCU-CUCGCACUCGCAC-------------------------UCUCUUUGUUUGAGUGCAAAUUUGCAUUGUCUCUUUGUGCUCGCA-ACA
.......---------..........-...((....((((-------------------------((.........))))))......((((.........))))..)).-... ( -15.10)
>DroAna_CAF1 37614 113 - 1
UGAACUGCUCCCCCACUUCCCCAUCUCCUCACCCUCCCACACCAUCGCUCGUCUCAUCUUGUUUGUCUCUUUGUUUGAGUGCAAAUUUGCAUUGUCUCUUUGUGAUUGC-CACG
...........................................(((((......((.(..(((((((((.......))).))))))..)...)).......)))))...-.... ( -10.62)
>consensus
UGAACUC_________UUCCCUUUCU_CUCGCACUCGCAC_________________________UCUCUUUGUUUGAGUGCAAAUUUGCAUUGUCUCUUUGUGCUCGCACACA
.......................................................................(((.((((((((((.............)))))))))).))).. ( -8.14 =  -8.50 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:32 2006