Locus 2909

Sequence ID X_DroMel_CAF1
Location 7,791,508 – 7,791,622
Length 114
Max. P 0.998692
window4767 window4768

overview

Window 7

Location 7,791,508 – 7,791,622
Length 114
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 76.47
Mean single sequence MFE -27.14
Consensus MFE -18.34
Energy contribution -20.34
Covariance contribution 2.00
Combinations/Pair 1.08
Mean z-score -1.92
Structure conservation index 0.68
SVM decision value 1.31
SVM RNA-class probability 0.940626
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7791508 114 + 22224390
UGUUAUACCCUUGCAGCAU---A-CAAGCGAUUAGAUCUAUUAUCUAUGGUGCAAACAGCUCACCAAAUUGGCAAUGCCCACUGCAAGGGUACACAAAAGAAGAGCUAAAGAGCGGUC
(((..(((((((((((...---.-........(((((.....)))))(((.(((....((.((......))))..))))))))))))))))).)))........(((....))).... ( -30.50)
>DroSec_CAF1 9245 102 + 1
UGUUAUACCCUUGCAGCA----------------GAUCUAAUAACUAUGGUGCAAACAGCUCACCAAAUUGGCAAUGCCCACUGCAAGGGUACGCAAAAGAAGAGCUAAGGAGCGGUC
(((..(((((((((((..----------------.............(((((.........)))))....(((...)))..))))))))))).)))........(((....))).... ( -28.60)
>DroSim_CAF1 17098 102 + 1
UGUUAUACCCUUGCAGCA----------------GAUCCAAUAACUAUGGUGCAAACAGCUCACCAAAUUGGCAAUGCCCACUGCAAGGGUACGCAAAAGAAGAGCUAAAGAGCGGUC
(((..(((((((((((((----------------...(((((.....(((((.........))))).)))))...)))....)))))))))).)))........(((....))).... ( -29.60)
>DroEre_CAF1 12755 86 + 1
UGUUAUACCCUUGCAGUAC--------------------------------ACAAACAGCUCACCAAACUAGCAAUGCCCACUGCAAGAGUACACAAAAAAAGAGCUAACAACCGGGC
(((..(((.((((((((..--------------------------------.((....(((.........)))..))...)))))))).))).)))........(((........))) ( -14.20)
>DroYak_CAF1 12147 117 + 1
UGUUAUACCCAGGUUGUACCGUAGCUUUCGAUUAGAUCUAUUAACUAUGGUACAAACGGCUCACCAAUGUGGCAAUGCCCACUGCAAGGGUACACAAA-AAAGAGCUGAAGAGCGGAC
........((...(((((((((((.....(((...)))......))))))))))).((((((.....((((....(((((.......)))))))))..-...))))))......)).. ( -32.80)
>consensus
UGUUAUACCCUUGCAGCA________________GAUCUAAUAACUAUGGUGCAAACAGCUCACCAAAUUGGCAAUGCCCACUGCAAGGGUACACAAAAGAAGAGCUAAAGAGCGGUC
(((..(((((((((((...............................(((((.........)))))....(((...)))..))))))))))).)))........(((....))).... (-18.34 = -20.34 +   2.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 7,791,508 – 7,791,622
Length 114
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 76.47
Mean single sequence MFE -34.18
Consensus MFE -25.08
Energy contribution -25.12
Covariance contribution 0.04
Combinations/Pair 1.21
Mean z-score -2.82
Structure conservation index 0.73
SVM decision value 3.19
SVM RNA-class probability 0.998692
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7791508 114 - 22224390
GACCGCUCUUUAGCUCUUCUUUUGUGUACCCUUGCAGUGGGCAUUGCCAAUUUGGUGAGCUGUUUGCACCAUAGAUAAUAGAUCUAAUCGCUUG-U---AUGCUGCAAGGGUAUAACA
....(((....)))..........(((((((((((((((.(((..((.....(((((.........)))))(((((.....)))))...)).))-)---.)))))))))))))))... ( -37.50)
>DroSec_CAF1 9245 102 - 1
GACCGCUCCUUAGCUCUUCUUUUGCGUACCCUUGCAGUGGGCAUUGCCAAUUUGGUGAGCUGUUUGCACCAUAGUUAUUAGAUC----------------UGCUGCAAGGGUAUAACA
....(((....)))...........((((((((((((..(((.(..((.....))..)((.....)).............).))----------------..)))))))))))).... ( -33.70)
>DroSim_CAF1 17098 102 - 1
GACCGCUCUUUAGCUCUUCUUUUGCGUACCCUUGCAGUGGGCAUUGCCAAUUUGGUGAGCUGUUUGCACCAUAGUUAUUGGAUC----------------UGCUGCAAGGGUAUAACA
....(((....)))...........((((((((((((..((.....(((((.(((((.........))))).....))))).))----------------..)))))))))))).... ( -36.40)
>DroEre_CAF1 12755 86 - 1
GCCCGGUUGUUAGCUCUUUUUUUGUGUACUCUUGCAGUGGGCAUUGCUAGUUUGGUGAGCUGUUUGU--------------------------------GUACUGCAAGGGUAUAACA
........................(((((((((((((((.(((..((.(((((...))))))).)))--------------------------------.)))))))))))))))... ( -29.30)
>DroYak_CAF1 12147 117 - 1
GUCCGCUCUUCAGCUCUUU-UUUGUGUACCCUUGCAGUGGGCAUUGCCACAUUGGUGAGCCGUUUGUACCAUAGUUAAUAGAUCUAAUCGAAAGCUACGGUACAACCUGGGUAUAACA
....(((....))).....-....(((((((........(((.(..((.....))..))))(.(((((((.(((((....(((...)))...))))).))))))).).)))))))... ( -34.00)
>consensus
GACCGCUCUUUAGCUCUUCUUUUGUGUACCCUUGCAGUGGGCAUUGCCAAUUUGGUGAGCUGUUUGCACCAUAGUUAAUAGAUC________________UGCUGCAAGGGUAUAACA
....(((....)))...........(((((((((((((((((.(..((.....))..))))(....).................................)))))))))))))).... (-25.08 = -25.12 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:25 2006