Locus 2759

Sequence ID 2L_DroMel_CAF1
Location 7,780,466 – 7,780,581
Length 115
Max. P 0.798332
window4382 window4383

overview

Window 2

Location 7,780,466 – 7,780,581
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.23
Mean single sequence MFE -39.13
Consensus MFE -26.83
Energy contribution -26.75
Covariance contribution -0.08
Combinations/Pair 1.25
Mean z-score -1.38
Structure conservation index 0.69
SVM decision value 0.61
SVM RNA-class probability 0.798332
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7780466 115 + 22407834
UUAACAAAUACUCGCACGUGGAGGAGGCGCACGUUCAUGUGGAGGCGUAUCCCUGGCAGCGAGUUUGCCAGGAGGAGACCAGGACCAACGUCAAUGGGAAGUGCGA---GAACGGAG--U
..........(((((((.(((.(((.((((.(.(((....)))))))).)))(((((((.....))))))).......))).(((....)))........))))))---).......--. ( -37.90)
>DroPse_CAF1 32281 100 + 1
UCAACAAGUACUCGCAUGUGGAGGAGGCCCACGUCCAUGUGGAGACCUAUCCCUGGCAGCGUGUCUGCCAGGAGGAGACAAAGUCU---GUCAAUAAUCA---------------GG--G
..........(((.((((((((.(.......).))))))))))).(((.((((((((((.....)))))))).)).((((.....)---))).......)---------------))--. ( -35.70)
>DroEre_CAF1 27989 115 + 1
UCAACAAGUACUCGCACGUGGAGGAGGCGCACGUCCAUGUGGAGGCCUAUCCCUGGCAGCGAGUAUGCCAGGAGGAGACCAGGACCACCCUCAAUGGAAAGUGUGA---GAACGGAG--U
.......((.(((((((((((.(((.(....).))).(.(((...(((...(((((((.......))))))))))...))).).))))((.....))...))))))---).))....--. ( -42.60)
>DroWil_CAF1 42499 120 + 1
UCAACAAGUACUCGCAUGUGGAGGAGGCUCAUGUGCACGUGGAAGCCUAUCCCUGGCAACGUGUGUGCCAGGAGGAGACCAAGACCAUGUGGAAUGGAAAGGGUGCAUGCAACGGCGAUC
.......(((((((((((((.((....)))))))))...(((...(((...(((((((.......))))))))))...)))...((((.....))))...)))))).(((....)))... ( -39.20)
>DroYak_CAF1 28251 115 + 1
UUAACAAGUACUCGCACGUGGAGGAGGCCCACGUCCAUGUGGAGGCCUAUCCCUGGCAGCGUGUUUGCCAGGAAGAGACCAGAACCCCCAGCAAUGGAAAGUGUGA---GAACGGUG--G
....((.((.(((((((.(((...(((((....(((....))))))))...((((((((.....))))))))......)))......(((....)))...))))))---).))..))--. ( -43.90)
>DroPer_CAF1 32374 100 + 1
UCAACAAGUACUCGCAUGUGGAGGAGGCCCACGUCCAUGUGGAGACCUAUCCCUGGCAGCGUGUCUGCCAGGAUGAGACAAAGUCU---GUCAAUAAUCA---------------GG--G
..........(((.((((((((.(.......).))))))))))).(((...((((((((.....))))))))....((((.....)---))).......)---------------))--. ( -35.50)
>consensus
UCAACAAGUACUCGCACGUGGAGGAGGCCCACGUCCAUGUGGAGGCCUAUCCCUGGCAGCGUGUCUGCCAGGAGGAGACCAAGACCA_CGUCAAUGGAAAGUGUGA___GAACGGAG__G
..........(((.((((((((.(.......).))))))))))).......((((((((.....))))))))................................................ (-26.83 = -26.75 +  -0.08)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 7,780,466 – 7,780,581
Length 115
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.23
Mean single sequence MFE -35.87
Consensus MFE -21.53
Energy contribution -21.67
Covariance contribution 0.14
Combinations/Pair 1.14
Mean z-score -1.43
Structure conservation index 0.60
SVM decision value 0.07
SVM RNA-class probability 0.567764
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7780466 115 - 22407834
A--CUCCGUUC---UCGCACUUCCCAUUGACGUUGGUCCUGGUCUCCUCCUGGCAAACUCGCUGCCAGGGAUACGCCUCCACAUGAACGUGCGCCUCCUCCACGUGCGAGUAUUUGUUAA
.--.......(---((((((..........((((((....(((....((((((((.......))))))))....))).))).)))...(((.(......))))))))))).......... ( -32.60)
>DroPse_CAF1 32281 100 - 1
C--CC---------------UGAUUAUUGAC---AGACUUUGUCUCCUCCUGGCAGACACGCUGCCAGGGAUAGGUCUCCACAUGGACGUGGGCCUCCUCCACAUGCGAGUACUUGUUGA
.--..---------------........(((---((...)))))....((((((((.....))))))))((((((((((((..((((...((....))))))..)).))).))))))).. ( -32.40)
>DroEre_CAF1 27989 115 - 1
A--CUCCGUUC---UCACACUUUCCAUUGAGGGUGGUCCUGGUCUCCUCCUGGCAUACUCGCUGCCAGGGAUAGGCCUCCACAUGGACGUGCGCCUCCUCCACGUGCGAGUACUUGUUGA
.--....((.(---((.(((((((....)))))))((((.(((((..((((((((.......))))))))..))))).......))))(..((.........))..)))).))....... ( -40.00)
>DroWil_CAF1 42499 120 - 1
GAUCGCCGUUGCAUGCACCCUUUCCAUUCCACAUGGUCUUGGUCUCCUCCUGGCACACACGUUGCCAGGGAUAGGCUUCCACGUGCACAUGAGCCUCCUCCACAUGCGAGUACUUGUUGA
........(((((((..............(((.(((....(((((..((((((((.......))))))))..))))).))).))).....(((....)))..)))))))........... ( -33.30)
>DroYak_CAF1 28251 115 - 1
C--CACCGUUC---UCACACUUUCCAUUGCUGGGGGUUCUGGUCUCUUCCUGGCAAACACGCUGCCAGGGAUAGGCCUCCACAUGGACGUGGGCCUCCUCCACGUGCGAGUACUUGUUAA
.--....((.(---((.(((..(((((.(.(((((((.(((.....(((((((((.......))))))))))))))))))))))))).(((((.....)))))))).))).))....... ( -44.50)
>DroPer_CAF1 32374 100 - 1
C--CC---------------UGAUUAUUGAC---AGACUUUGUCUCAUCCUGGCAGACACGCUGCCAGGGAUAGGUCUCCACAUGGACGUGGGCCUCCUCCACAUGCGAGUACUUGUUGA
.--..---------------........(((---((...)))))....((((((((.....))))))))((((((((((((..((((...((....))))))..)).))).))))))).. ( -32.40)
>consensus
C__CCCCGUUC___UCACACUUUCCAUUGACG_UGGUCCUGGUCUCCUCCUGGCAAACACGCUGCCAGGGAUAGGCCUCCACAUGGACGUGGGCCUCCUCCACAUGCGAGUACUUGUUGA
.........................................(((((...((((((.......))))))(((.(((((..(((......))))))))..)))......))).))....... (-21.53 = -21.67 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:29 2006