Locus 8497

Sequence ID X_DroMel_CAF1
Location 21,064,269 – 21,064,467
Length 198
Max. P 0.916286
window13983 window13984 window13985 window13986

overview

Window 3

Location 21,064,269 – 21,064,387
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 91.62
Mean single sequence MFE -36.50
Consensus MFE -30.52
Energy contribution -31.97
Covariance contribution 1.45
Combinations/Pair 1.03
Mean z-score -1.86
Structure conservation index 0.84
SVM decision value -0.04
SVM RNA-class probability 0.512351
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21064269 118 + 22224390
CCUCGUUUUUU--UUUGCGGCAUGUGGACCGAGCUCCAGCUGGAAGAGGAAGUGCGGCUUGAUUUACUCAACUCGUUUGCUCGCUCGUUUGUUUCCAACUGCUGCAAACAUAUUUUUCUG
...........--(((((((((..((((.((((((((....))).(((.((..(((..((((.....))))..))))).))))))))......))))..)))))))))............ ( -35.60)
>DroEre_CAF1 35383 120 + 1
GCUCUCCUUUUUUUUUGGAGCAUGGGGCCCGAGCUCCAGCUGGAAGCGGAAGUGCGGCUUGAUUUACUCAACUCGUUUGCUCGCUCGUUUGUUUCCAACUGCUGCAAACAUAUUUUUGUG
.............((((.((((((((((....))))))..((((((((((.(.(((((.(((.((....)).)))...)).))).).))))))))))..)))).))))((((....)))) ( -36.20)
>DroYak_CAF1 38534 118 + 1
CCUCUCCUCUU--UUUGCAGCAUGGGACACGAGCUCCAGCUGGAAGCGGAAGUGCGGCUUGAUUUACUCAACUCGUUUGCUCGCUCGUUUGUUUCCAACUGCUGCAAACAUAUUUUUCUG
...........--(((((((((..(((.(((((((((....)))(((((....(((..((((.....))))..)))....))))).)))))).)))...)))))))))............ ( -37.70)
>consensus
CCUCUCCUUUU__UUUGCAGCAUGGGGCCCGAGCUCCAGCUGGAAGCGGAAGUGCGGCUUGAUUUACUCAACUCGUUUGCUCGCUCGUUUGUUUCCAACUGCUGCAAACAUAUUUUUCUG
.............(((((((((((((((....))))))..((((((((((.(.(((((.(((.((....)).)))...)).))).).))))))))))..)))))))))............ (-30.52 = -31.97 +   1.45)

alignment

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secondary structure

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dotplot

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Window 4

Location 21,064,307 – 21,064,427
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.83
Mean single sequence MFE -30.13
Consensus MFE -25.25
Energy contribution -25.70
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -2.01
Structure conservation index 0.84
SVM decision value -0.05
SVM RNA-class probability 0.505632
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21064307 120 + 22224390
UGGAAGAGGAAGUGCGGCUUGAUUUACUCAACUCGUUUGCUCGCUCGUUUGUUUCCAACUGCUGCAAACAUAUUUUUCUGCACCACCCCGGCUAAAAUAUUUCUUAGCCCUUAAACAAAC
((.(((.((..((((((.((((.....))))...((((((..((..(((.......))).)).))))))........))))))..))..((((((........)))))))))...))... ( -27.10)
>DroEre_CAF1 35423 119 + 1
UGGAAGCGGAAGUGCGGCUUGAUUUACUCAACUCGUUUGCUCGCUCGUUUGUUUCCAACUGCUGCAAACAUAUUUUUGUGCAGCACCC-GGCUAAAAUAUUUAUUAGCCCUUAAACAAAC
((((((((((.(.(((((.(((.((....)).)))...)).))).).))))))))))..((((((..(((......)))))))))...-((((((........))))))........... ( -35.60)
>DroYak_CAF1 38572 120 + 1
UGGAAGCGGAAGUGCGGCUUGAUUUACUCAACUCGUUUGCUCGCUCGUUUGUUUCCAACUGCUGCAAACAUAUUUUUCUGUUCCACCCUGGCUAAAAUAUUUAUUAGCCCUUAAACAAAC
(((((.((((((.(((((.(((.((....)).)))...)).))).)((((((...........))))))......))))))))))....((((((........))))))........... ( -27.70)
>consensus
UGGAAGCGGAAGUGCGGCUUGAUUUACUCAACUCGUUUGCUCGCUCGUUUGUUUCCAACUGCUGCAAACAUAUUUUUCUGCACCACCC_GGCUAAAAUAUUUAUUAGCCCUUAAACAAAC
((((((((((.(.(((((.(((.((....)).)))...)).))).).))))))))))..((.((((............)))).))....((((((........))))))........... (-25.25 = -25.70 +   0.45)

alignment

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secondary structure

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dotplot

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Window 5

Location 21,064,307 – 21,064,427
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.83
Mean single sequence MFE -35.57
Consensus MFE -28.73
Energy contribution -29.73
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.51
Structure conservation index 0.81
SVM decision value 0.21
SVM RNA-class probability 0.636723
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21064307 120 - 22224390
GUUUGUUUAAGGGCUAAGAAAUAUUUUAGCCGGGGUGGUGCAGAAAAAUAUGUUUGCAGCAGUUGGAAACAAACGAGCGAGCAAACGAGUUGAGUAAAUCAAGCCGCACUUCCUCUUCCA
...........((((((((....))))))))((((.(((((..........((((((.((.((((....).)))..))..))))))(..((((.....))))..)))))).))))..... ( -39.40)
>DroEre_CAF1 35423 119 - 1
GUUUGUUUAAGGGCUAAUAAAUAUUUUAGCC-GGGUGCUGCACAAAAAUAUGUUUGCAGCAGUUGGAAACAAACGAGCGAGCAAACGAGUUGAGUAAAUCAAGCCGCACUUCCGCUUCCA
((((((((...((((((........))))))-((.(((((((((......)))..)))))).))..))))))))(((((......((..((((.....))))..))......)))))... ( -35.00)
>DroYak_CAF1 38572 120 - 1
GUUUGUUUAAGGGCUAAUAAAUAUUUUAGCCAGGGUGGAACAGAAAAAUAUGUUUGCAGCAGUUGGAAACAAACGAGCGAGCAAACGAGUUGAGUAAAUCAAGCCGCACUUCCGCUUCCA
...........((((((........)))))).((((((((...........((((((.((.((((....).)))..))..))))))(..((((.....))))..)....))))))))... ( -32.30)
>consensus
GUUUGUUUAAGGGCUAAUAAAUAUUUUAGCC_GGGUGGUGCAGAAAAAUAUGUUUGCAGCAGUUGGAAACAAACGAGCGAGCAAACGAGUUGAGUAAAUCAAGCCGCACUUCCGCUUCCA
...........((((((........))))))..((.(((((..........((((((.((.((((....).)))..))..))))))(..((((.....))))..)))))).))....... (-28.73 = -29.73 +   1.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 21,064,347 – 21,064,467
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 86.12
Mean single sequence MFE -28.24
Consensus MFE -22.89
Energy contribution -23.00
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.60
Structure conservation index 0.81
SVM decision value 1.11
SVM RNA-class probability 0.916286
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21064347 120 + 22224390
UCGCUCGUUUGUUUCCAACUGCUGCAAACAUAUUUUUCUGCACCACCCCGGCUAAAAUAUUUCUUAGCCCUUAAACAAACGGAAUAGAUGUGCGGCCCAAUGGAAAACGGAAAACUACAC
....((((((...((((...(((((..((((....(((((.........((((((........))))))..........)))))...)))))))))....)))))))))).......... ( -27.61)
>DroEre_CAF1 35463 109 + 1
UCGCUCGUUUGUUUCCAACUGCUGCAAACAUAUUUUUGUGCAGCACCC-GGCUAAAAUAUUUAUUAGCCCUUAAACAAACGGAAUAGAUGUGCGGCCCCAUGCAAA-------AUCG---
.(((.((((((((((....((((((..(((......)))))))))...-((((((........))))))...........)))))))))).)))((.....))...-------....--- ( -31.80)
>DroYak_CAF1 38612 113 + 1
UCGCUCGUUUGUUUCCAACUGCUGCAAACAUAUUUUUCUGUUCCACCCUGGCUAAAAUAUUUAUUAGCCCUUAAACAAACGGAAUAGAUGUGCGGCCCCUCGCCAA-------ACUACAC
..((.(((((((...........)))))).......((((((((.....((((((........)))))).((....))..)))))))).).))(((.....)))..-------....... ( -25.30)
>consensus
UCGCUCGUUUGUUUCCAACUGCUGCAAACAUAUUUUUCUGCACCACCC_GGCUAAAAUAUUUAUUAGCCCUUAAACAAACGGAAUAGAUGUGCGGCCCCAUGCAAA_______ACUACAC
((((.((((((((((....((.((((............)))).))....((((((........))))))...........)))))))))).))))......................... (-22.89 = -23.00 +   0.11)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:05:50 2006