Locus 3571

Sequence ID X_DroMel_CAF1
Location 9,591,340 – 9,591,441
Length 101
Max. P 0.944683
window5842 window5843

overview

Window 2

Location 9,591,340 – 9,591,441
Length 101
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 78.69
Mean single sequence MFE -21.44
Consensus MFE -11.31
Energy contribution -11.37
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -2.62
Structure conservation index 0.53
SVM decision value 1.35
SVM RNA-class probability 0.944683
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9591340 101 + 22224390
--CACAUAAUUCAAUUAAUUUG-----AUUUAAUUGCCGCAAUGAAAGCGGCGCAUAAAUUGCAUAAAUUACCCACGAACUGAGCAA---------UGCACCGGCAAUUAAACGACC
--........((((.....)))-----)((((((((((((.......))((.((((....(((....................))))---------))).))))))))))))..... ( -22.15)
>DroPse_CAF1 66268 100 + 1
CACACAUAAUUCAAUUAAUUUGAUUUGAUUUAAUUGCCGCAAUGAAAGCGGCUCAUAAAUUGCAUAAAUUACCCACGAACUAGUG-----------------AGUAAUUAUACGAGU
........((((..............((((((...(((((.......)))))...)))))).....((((((.(((......)))-----------------.))))))....)))) ( -21.30)
>DroSim_CAF1 36567 101 + 1
--CACAUAAUUCAAUUAAUUUG-----AUUUAAUUGCCGCAAUGAAAGCGGCGCAUAAAUUGCAUAAAUUACCCACGAAAUGAGCAA---------UGCACCGGCAAUUAAACGACC
--........((((.....)))-----)((((((((((((.......))((.((((....(((....(((........)))..))))---------))).))))))))))))..... ( -22.20)
>DroYak_CAF1 52764 110 + 1
--CACAUAAUUCAAUUAAUUUG-----AUUUAAUUGCCGCAAUGAAAGCAGCGCAUAAAUUGCAUAAAUUACCCACGAACUGAGCAACUGAGCAAUUGCAGCGGCAAUUAAACGACC
--........((((.....)))-----)((((((((((((............(((.....)))....................((((........)))).))))))))))))..... ( -25.20)
>DroAna_CAF1 64348 81 + 1
--CACAUAAUUCAAUUAAUUUG-----AUUUAAUUGCUGCAAUGAAAGCGGCGCAUAAAUUGCAUAAAUUA----------------------------AAAGGCAAUUAAACG-CA
--................((((-----(((((...(((((.......)))))(((.....))).)))))))----------------------------))..((........)-). ( -16.50)
>DroPer_CAF1 67115 100 + 1
CACACAUAAUUCAAUUAAUUUGAUUUGAUUUAAUUGCCGCAAUGAAAGCGGCUCAUAAAUUGCAUAAAUUACCCACGAACUAGUG-----------------AGUAAUUAUACGAGU
........((((..............((((((...(((((.......)))))...)))))).....((((((.(((......)))-----------------.))))))....)))) ( -21.30)
>consensus
__CACAUAAUUCAAUUAAUUUG_____AUUUAAUUGCCGCAAUGAAAGCGGCGCAUAAAUUGCAUAAAUUACCCACGAACUGAGC______________A_CGGCAAUUAAACGACC
...............(((((((.....(((((...(((((.......)))))...)))))....))))))).............................................. (-11.31 = -11.37 +   0.06)

alignment

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secondary structure

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dotplot

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Window 3

Location 9,591,340 – 9,591,441
Length 101
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 78.69
Mean single sequence MFE -25.94
Consensus MFE -12.77
Energy contribution -12.77
Covariance contribution 0.00
Combinations/Pair 1.16
Mean z-score -2.55
Structure conservation index 0.49
SVM decision value 1.04
SVM RNA-class probability 0.905573
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9591340 101 - 22224390
GGUCGUUUAAUUGCCGGUGCA---------UUGCUCAGUUCGUGGGUAAUUUAUGCAAUUUAUGCGCCGCUUUCAUUGCGGCAAUUAAAU-----CAAAUUAAUUGAAUUAUGUG--
....(((((((((((((((((---------(((((((.....)))))).............)))))))((.......)))))))))))))-----....................-- ( -28.41)
>DroPse_CAF1 66268 100 - 1
ACUCGUAUAAUUACU-----------------CACUAGUUCGUGGGUAAUUUAUGCAAUUUAUGAGCCGCUUUCAUUGCGGCAAUUAAAUCAAAUCAAAUUAAUUGAAUUAUGUGUG
....(((((((((((-----------------(((......)))))))).))))))....((((((((((.......)))))............((((.....)))).))))).... ( -26.30)
>DroSim_CAF1 36567 101 - 1
GGUCGUUUAAUUGCCGGUGCA---------UUGCUCAUUUCGUGGGUAAUUUAUGCAAUUUAUGCGCCGCUUUCAUUGCGGCAAUUAAAU-----CAAAUUAAUUGAAUUAUGUG--
....(((((((((((((((((---------((((((((...))))))).............)))))))((.......)))))))))))))-----....................-- ( -29.01)
>DroYak_CAF1 52764 110 - 1
GGUCGUUUAAUUGCCGCUGCAAUUGCUCAGUUGCUCAGUUCGUGGGUAAUUUAUGCAAUUUAUGCGCUGCUUUCAUUGCGGCAAUUAAAU-----CAAAUUAAUUGAAUUAUGUG--
....(((((((((((((.((((((((..(((((((((.....)))))))))...)))))...))))).((.......)))))))))))))-----....................-- ( -31.40)
>DroAna_CAF1 64348 81 - 1
UG-CGUUUAAUUGCCUUU----------------------------UAAUUUAUGCAAUUUAUGCGCCGCUUUCAUUGCAGCAAUUAAAU-----CAAAUUAAUUGAAUUAUGUG--
.(-(((..((((((....----------------------------........))))))...)))).((.......))..(((((((..-----....))))))).........-- ( -14.20)
>DroPer_CAF1 67115 100 - 1
ACUCGUAUAAUUACU-----------------CACUAGUUCGUGGGUAAUUUAUGCAAUUUAUGAGCCGCUUUCAUUGCGGCAAUUAAAUCAAAUCAAAUUAAUUGAAUUAUGUGUG
....(((((((((((-----------------(((......)))))))).))))))....((((((((((.......)))))............((((.....)))).))))).... ( -26.30)
>consensus
GGUCGUUUAAUUGCCG_U______________GCUCAGUUCGUGGGUAAUUUAUGCAAUUUAUGCGCCGCUUUCAUUGCGGCAAUUAAAU_____CAAAUUAAUUGAAUUAUGUG__
....((..(((((((.............................)))))))...)).(((((...(((((.......)))))...)))))........................... (-12.77 = -12.77 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:41 2006