Locus 4461

Sequence ID X_DroMel_CAF1
Location 11,804,443 – 11,804,603
Length 160
Max. P 0.999989
window7329 window7330 window7331

overview

Window 9

Location 11,804,443 – 11,804,563
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 92.56
Mean single sequence MFE -26.05
Consensus MFE -22.81
Energy contribution -23.42
Covariance contribution 0.61
Combinations/Pair 1.10
Mean z-score -1.88
Structure conservation index 0.88
SVM decision value 1.14
SVM RNA-class probability 0.920828
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11804443 120 + 22224390
CUCCUUCUCGAGCUCCUGCAGUUGUUUCUCUUUAUCCUCUUCGACUUGUUCCUCUUCGGCUGCUGUUAGUUCUUGGGCAUUCGCCAAAUUAUCAACGGCGAUAGCCAAGAACACAUUCAA
.........(((.....(((((((................................))))))).....((((((((.(..(((((...........)))))..)))))))))...))).. ( -27.55)
>DroVir_CAF1 10613 120 + 1
CUCCUUUUCUAGCUCUUGUAGUUGUUUCUCUUUAUCCUCUUCGACUUGUUCCUCUUCGGCUGCUGUCAGUUCUUGCGCAUUCGCCAAAUUAUCGACGGCGAUAGCCAAGAACACAUUUAA
.........(((((.....)))))..................(((..((.((.....))..)).))).(((((((.((..(((((...........)))))..)))))))))........ ( -25.60)
>DroPse_CAF1 181 120 + 1
UUCCUUUUCAAGUUCUUGCAGUUGUUUCUCUUUAUCCUCUUCGACUUGUUCCUCUUCGGCUGCUGUUAACUCUUGUGCAUUCGCCAAAUUAUCAACGGCGAUAGCCAAGAAAACAUUUAA
.................(((((((................................)))))))((((...(((((.((..(((((...........)))))..))))))).))))..... ( -23.15)
>DroGri_CAF1 10143 120 + 1
CUCCUUCUCUAGCUCUUGGAGUUGUUUCUCUUUAUCUUCUUCGACUUGUUCCUCUUCGGCUGCUGUAAGUUCUUGUGCAUUCGCCAAGUUAUCGACGGCGAUAGCCAAGAACACAUUUAA
.........((((..((((((..(..........................)..))))))..))))...(((((((.((..(((((...........)))))..)))))))))........ ( -26.27)
>DroMoj_CAF1 8922 120 + 1
UUCUUUUUCUAGUUCUUGGAGCUGUUUCUCUUUAUCUUCUUCGACUUGUUCCUCUUCGGCUGCUGUCAGUUCUUGAGCAUUCGCCAAAUUAUCGACGGCGAUAGCCAAGAACACAUUUAA
...........(((((((((((.(((................)))..))))).....((((((((((.((..(((.((....)))))...)).))))))...))))))))))........ ( -29.39)
>DroPer_CAF1 6247 120 + 1
UUCCUUUUCAAGUUCUUGCAGUUGUUUCUCUUUAUCCUCUUCGACUUGUUCCUCUUCGGCUGCUGUUAAUUCUUGUGCAUUCGCCAAAUUAUCAACGGCGAUAGCCAAGAAAACAUUUAA
.................(((((((................................)))))))((((..((((((.((..(((((...........)))))..))))))))))))..... ( -24.35)
>consensus
CUCCUUUUCUAGCUCUUGCAGUUGUUUCUCUUUAUCCUCUUCGACUUGUUCCUCUUCGGCUGCUGUUAGUUCUUGUGCAUUCGCCAAAUUAUCAACGGCGAUAGCCAAGAACACAUUUAA
.................(((((((................................))))))).....(((((((.((..(((((...........)))))..)))))))))........ (-22.81 = -23.42 +   0.61)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,804,483 – 11,804,603
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 95.11
Mean single sequence MFE -34.72
Consensus MFE -32.71
Energy contribution -32.98
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -3.04
Structure conservation index 0.94
SVM decision value 4.70
SVM RNA-class probability 0.999941
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11804483 120 + 22224390
UCGACUUGUUCCUCUUCGGCUGCUGUUAGUUCUUGGGCAUUCGCCAAAUUAUCAACGGCGAUAGCCAAGAACACAUUCAAUAGCGUGUAAUUUCCGAAGAGUACCAAAACGAUAAAGUAU
(((..(((...((((((((.........((((((((.(..(((((...........)))))..)))))))))((((.(....).)))).....))))))))...)))..)))........ ( -36.30)
>DroVir_CAF1 10653 120 + 1
UCGACUUGUUCCUCUUCGGCUGCUGUCAGUUCUUGCGCAUUCGCCAAAUUAUCGACGGCGAUAGCCAAGAACACAUUUAAAAGCGUAUAAUUACCGAAGAGUACCAAAACGAUAAAGUAU
(((..(((...((((((((((..(((..(((((((.((..(((((...........)))))..))))))))))))......)))(((....))))))))))...)))..)))........ ( -34.90)
>DroPse_CAF1 221 120 + 1
UCGACUUGUUCCUCUUCGGCUGCUGUUAACUCUUGUGCAUUCGCCAAAUUAUCAACGGCGAUAGCCAAGAAAACAUUUAAGAGCGUGUAAUUACCGAAGAGUACCAAAACGAUAAAGUAU
(((..(((...(((((((((((((.((((.(((((.((..(((((...........)))))..)))))))......)))).)))).)......))))))))...)))..)))........ ( -32.60)
>DroGri_CAF1 10183 120 + 1
UCGACUUGUUCCUCUUCGGCUGCUGUAAGUUCUUGUGCAUUCGCCAAGUUAUCGACGGCGAUAGCCAAGAACACAUUUAAAAGCGUAUAAUUACCGAAGAGUACCAAAACGAUAAAGUAU
(((..(((...((((((((((...((..(((((((.((..(((((...........)))))..)))))))))..)).....)))(((....))))))))))...)))..)))........ ( -35.00)
>DroMoj_CAF1 8962 120 + 1
UCGACUUGUUCCUCUUCGGCUGCUGUCAGUUCUUGAGCAUUCGCCAAAUUAUCGACGGCGAUAGCCAAGAACACAUUUAAAAGCGUAUAAUUACCGAAGAGUACCAAAACGAUAAAGUAU
(((..(((...((((((((((..(((..(((((((.((..(((((...........)))))..))))))))))))......)))(((....))))))))))...)))..)))........ ( -34.90)
>DroPer_CAF1 6287 120 + 1
UCGACUUGUUCCUCUUCGGCUGCUGUUAAUUCUUGUGCAUUCGCCAAAUUAUCAACGGCGAUAGCCAAGAAAACAUUUAAGAGCGUGUAAUUACCGAAGAGUACCAAAACGAUAAAGUAU
(((..(((...(((((((((((((.((((((((((.((..(((((...........)))))..)))))))).....)))).)))).)......))))))))...)))..)))........ ( -34.60)
>consensus
UCGACUUGUUCCUCUUCGGCUGCUGUUAGUUCUUGUGCAUUCGCCAAAUUAUCAACGGCGAUAGCCAAGAACACAUUUAAAAGCGUAUAAUUACCGAAGAGUACCAAAACGAUAAAGUAU
(((..(((...((((((((((..((...(((((((.((..(((((...........)))))..))))))))).....))..)))(((....))))))))))...)))..)))........ (-32.71 = -32.98 +   0.28)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,804,483 – 11,804,603
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 95.11
Mean single sequence MFE -39.70
Consensus MFE -38.31
Energy contribution -38.67
Covariance contribution 0.36
Combinations/Pair 1.03
Mean z-score -3.58
Structure conservation index 0.96
SVM decision value 5.52
SVM RNA-class probability 0.999989
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11804483 120 - 22224390
AUACUUUAUCGUUUUGGUACUCUUCGGAAAUUACACGCUAUUGAAUGUGUUCUUGGCUAUCGCCGUUGAUAAUUUGGCGAAUGCCCAAGAACUAACAGCAGCCGAAGAGGAACAAGUCGA
........(((.((((...((((((((.....(((..(....)..)))(((((((((..((((((.........))))))..).)))))))).........))))))))...)))).))) ( -40.30)
>DroVir_CAF1 10653 120 - 1
AUACUUUAUCGUUUUGGUACUCUUCGGUAAUUAUACGCUUUUAAAUGUGUUCUUGGCUAUCGCCGUCGAUAAUUUGGCGAAUGCGCAAGAACUGACAGCAGCCGAAGAGGAACAAGUCGA
........(((.((((...(((((((((........((........))(((((((((..((((((.........))))))..)).)))))))........)))))))))...)))).))) ( -40.80)
>DroPse_CAF1 221 120 - 1
AUACUUUAUCGUUUUGGUACUCUUCGGUAAUUACACGCUCUUAAAUGUUUUCUUGGCUAUCGCCGUUGAUAAUUUGGCGAAUGCACAAGAGUUAACAGCAGCCGAAGAGGAACAAGUCGA
........(((.((((...(((((((((........(((.((((.....((((((((..((((((.........))))))..)).)))))))))).))).)))))))))...)))).))) ( -37.60)
>DroGri_CAF1 10183 120 - 1
AUACUUUAUCGUUUUGGUACUCUUCGGUAAUUAUACGCUUUUAAAUGUGUUCUUGGCUAUCGCCGUCGAUAACUUGGCGAAUGCACAAGAACUUACAGCAGCCGAAGAGGAACAAGUCGA
........(((.((((...(((((((((........((........))(((((((((..((((((.........))))))..)).)))))))........)))))))))...)))).))) ( -40.80)
>DroMoj_CAF1 8962 120 - 1
AUACUUUAUCGUUUUGGUACUCUUCGGUAAUUAUACGCUUUUAAAUGUGUUCUUGGCUAUCGCCGUCGAUAAUUUGGCGAAUGCUCAAGAACUGACAGCAGCCGAAGAGGAACAAGUCGA
........(((.((((...(((((((((........((........))(((((((((..((((((.........))))))..)).)))))))........)))))))))...)))).))) ( -40.80)
>DroPer_CAF1 6287 120 - 1
AUACUUUAUCGUUUUGGUACUCUUCGGUAAUUACACGCUCUUAAAUGUUUUCUUGGCUAUCGCCGUUGAUAAUUUGGCGAAUGCACAAGAAUUAACAGCAGCCGAAGAGGAACAAGUCGA
........(((.((((...(((((((((........(((.((((.....((((((((..((((((.........))))))..)).)))))))))).))).)))))))))...)))).))) ( -37.90)
>consensus
AUACUUUAUCGUUUUGGUACUCUUCGGUAAUUACACGCUUUUAAAUGUGUUCUUGGCUAUCGCCGUCGAUAAUUUGGCGAAUGCACAAGAACUAACAGCAGCCGAAGAGGAACAAGUCGA
........(((.((((...(((((((((........((........))(((((((((..((((((.........))))))..)).)))))))........)))))))))...)))).))) (-38.31 = -38.67 +   0.36)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:38 2006