Locus 6145

Sequence ID 2R_DroMel_CAF1
Location 19,337,479 – 19,337,574
Length 95
Max. P 0.867392
window9844 window9845

overview

Window 4

Location 19,337,479 – 19,337,574
Length 95
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 72.66
Mean single sequence MFE -23.93
Consensus MFE -12.99
Energy contribution -12.93
Covariance contribution -0.05
Combinations/Pair 1.29
Mean z-score -1.75
Structure conservation index 0.54
SVM decision value 0.85
SVM RNA-class probability 0.867392
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19337479 95 + 20766785
CCAGCUGUGAAAGUUGGCAGUUGGCCAGCUGGUUGUCACCUGUGAAAG---------CAAACUAAUAGAUUCAAAU-----AUUUGCAUUUCCCGUCCACAGCUGGAGG
(((((((((..(((((((.....)))))))(((....))).(.(((((---------((((...............-----.))))).)))).)...)))))))))... ( -32.49)
>DroSec_CAF1 15257 75 + 1
CCAGCUGUGAAAGUUGGCAGUUGGCCAGCUGGUUGUCACCUGUGAAAG---------CUAACUAAUAGAUUCAAAU-----AUUUGCAU--------------------
((((((.....)))))).(((((((..((.(((....))).))....)---------)))))).............-----........-------------------- ( -18.50)
>DroSim_CAF1 15474 85 + 1
CCAGCUGUGAAAGUUGGCAGUUGGCCAGCUGGUUGUCACCUGUGAAAG---------CGAACUAAUAGAUUCAAAU-----AUUUGCAUUU----UCCACAGC------
...((((((..(((((((.....))))))).(((.(((....))).))---------)..................-----..........----..))))))------ ( -22.70)
>DroEre_CAF1 32644 94 + 1
CCAGCUGUGAAAGUUGGCAGUUGGCCAGCUGGUUGUCACCUGUGAAAGUCAACUAAACGAACUAAUAAAUUGAAAU-----AUUUGCAUAU----UCCACAGC------
...((((((..(((((((.....)))))))((((((((....)))....)))))......................-----..........----..))))))------ ( -23.20)
>DroYak_CAF1 15835 94 + 1
CCAGCUGUGAAAGUUGGCAGUUGGCCAGCGGGUUGUCACCUGUGAGAACCAACUAAACGAACUAAUAAAUUGAUAU-----AUUUGCAUAU----UCCACAGC------
...((((((...((((((.....)))))).((((.(((....))).))))..........................-----..........----..))))))------ ( -27.40)
>DroAna_CAF1 15976 86 + 1
ACAGCCGUGGAAAUUGGCUUUCUGCCAAAUAGUUGUCGUCCGGAAAA------------AGGUUAUAAAUUAAAAGAACUUUUUUCUAUAU----CCAACAG-------
.......((((..(((((.....))))).............((((((------------(((((............)))))))))))...)----)))....------- ( -19.30)
>consensus
CCAGCUGUGAAAGUUGGCAGUUGGCCAGCUGGUUGUCACCUGUGAAAG_________CGAACUAAUAAAUUCAAAU_____AUUUGCAUAU____UCCACAGC______
.(((..((((.(((((((.....))))))).....)))))))................................................................... (-12.99 = -12.93 +  -0.05)

alignment

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secondary structure

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dotplot

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Window 5

Location 19,337,479 – 19,337,574
Length 95
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 72.66
Mean single sequence MFE -22.92
Consensus MFE -11.50
Energy contribution -13.03
Covariance contribution 1.53
Combinations/Pair 1.27
Mean z-score -1.77
Structure conservation index 0.50
SVM decision value 0.60
SVM RNA-class probability 0.794872
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19337479 95 - 20766785
CCUCCAGCUGUGGACGGGAAAUGCAAAU-----AUUUGAAUCUAUUAGUUUG---------CUUUCACAGGUGACAACCAGCUGGCCAACUGCCAACUUUCACAGCUGG
...(((((((((((.((((((.((((((-----..............)))))---------)))))...(....)..))((.((((.....)))).))))))))))))) ( -33.54)
>DroSec_CAF1 15257 75 - 1
--------------------AUGCAAAU-----AUUUGAAUCUAUUAGUUAG---------CUUUCACAGGUGACAACCAGCUGGCCAACUGCCAACUUUCACAGCUGG
--------------------........-----...((((.(((.....)))---------..))))..(....)..(((((((..................))))))) ( -14.97)
>DroSim_CAF1 15474 85 - 1
------GCUGUGGA----AAAUGCAAAU-----AUUUGAAUCUAUUAGUUCG---------CUUUCACAGGUGACAACCAGCUGGCCAACUGCCAACUUUCACAGCUGG
------((((((((----(...((....-----....((((......)))).---------........(((....))).))((((.....))))..)))))))))... ( -23.30)
>DroEre_CAF1 32644 94 - 1
------GCUGUGGA----AUAUGCAAAU-----AUUUCAAUUUAUUAGUUCGUUUAGUUGACUUUCACAGGUGACAACCAGCUGGCCAACUGCCAACUUUCACAGCUGG
------((((((((----(...((....-----...((((((.............))))))........(((....))).))((((.....))))..)))))))))... ( -23.52)
>DroYak_CAF1 15835 94 - 1
------GCUGUGGA----AUAUGCAAAU-----AUAUCAAUUUAUUAGUUCGUUUAGUUGGUUCUCACAGGUGACAACCCGCUGGCCAACUGCCAACUUUCACAGCUGG
------((((((((----(...((.(((-----(........))))((((.(((.(((.((((.(((....))).)))).)))))).))))))....)))))))))... ( -26.50)
>DroAna_CAF1 15976 86 - 1
-------CUGUUGG----AUAUAGAAAAAAGUUCUUUUAAUUUAUAACCU------------UUUUCCGGACGACAACUAUUUGGCAGAAAGCCAAUUUCCACGGCUGU
-------((((..(----(((..((((((.(((.(........).))).)------------))))).(.....)...))))..))))..((((.........)))).. ( -15.70)
>consensus
______GCUGUGGA____AUAUGCAAAU_____AUUUGAAUCUAUUAGUUCG_________CUUUCACAGGUGACAACCAGCUGGCCAACUGCCAACUUUCACAGCUGG
......((((((((.......................................................(((....)))...((((.....))))...))))))))... (-11.50 = -13.03 +   1.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:57 2006