Locus 6917

Sequence ID 2L_DroMel_CAF1
Location 19,280,309 – 19,280,407
Length 98
Max. P 0.877689
window11027 window11028

overview

Window 7

Location 19,280,309 – 19,280,407
Length 98
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 80.45
Mean single sequence MFE -26.32
Consensus MFE -16.61
Energy contribution -17.30
Covariance contribution 0.69
Combinations/Pair 1.22
Mean z-score -2.13
Structure conservation index 0.63
SVM decision value 0.90
SVM RNA-class probability 0.877689
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19280309 98 + 22407834
AAUCAGAUGAGCAGGAGCUACAAUCUUUGAGUGAAUAGCUGAAUAGCA------------GACCACAACUCAAAUGUGAUUUAGGCAAAGCUCGCAUUCUGCUCAAUUAU
.......(((((((((((((((...(((((((......(((.....))------------)......))))))))))).....(((...))).)).)))))))))..... ( -26.70)
>DroSec_CAF1 21401 98 + 1
AUUCAGAUGAGCAGGAGCUGCAAUCUUUGAGUGAAUAGCUGAAUAGCA------------GACCACUACUCAAGUGUGAUUUAGCCAAAGCUCGCUUUCUGCUCAAUUAU
.......((((((((.((((.((((((((((((.....(((.....))------------).....))))))))...)))))))))((((....)))))))))))..... ( -27.20)
>DroSim_CAF1 28340 98 + 1
AAUCAGAUGAGCAGUAGCUACAAUCUUUGAGUGAAUAGCUGAAUAGCA------------GACCACUACUCCAAUGUGAUUUAGGUAGAGUUCGCUUUCUGCUCAAUUAU
.......(((((((.(((......(((((..(((((.(((....))).------------...(((.........))))))))..)))))...)))..)))))))..... ( -22.90)
>DroYak_CAF1 27566 107 + 1
AAUCUGAUGGGUAGGAGAUAAAAUGUCUGAGUCAAUGGCUGAAUAGCAGCCACAGAACAAGACUGCCACUCAAA---GAUUUAGUCAAAGUUAGCUUUUUGCUCAAUUAU
.......((((((((((.(((..((.(((((((..((((((.....))))))(((.......))).........---))))))).))...)))..))))))))))..... ( -28.50)
>consensus
AAUCAGAUGAGCAGGAGCUACAAUCUUUGAGUGAAUAGCUGAAUAGCA____________GACCACUACUCAAAUGUGAUUUAGGCAAAGCUCGCUUUCUGCUCAAUUAU
.......(((((((((((......(((((..(((((.(((....)))................(((.........))))))))..)))))...)).)))))))))..... (-16.61 = -17.30 +   0.69)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,280,309 – 19,280,407
Length 98
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 80.45
Mean single sequence MFE -27.17
Consensus MFE -13.47
Energy contribution -14.53
Covariance contribution 1.06
Combinations/Pair 1.14
Mean z-score -2.70
Structure conservation index 0.50
SVM decision value 0.50
SVM RNA-class probability 0.760788
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19280309 98 - 22407834
AUAAUUGAGCAGAAUGCGAGCUUUGCCUAAAUCACAUUUGAGUUGUGGUC------------UGCUAUUCAGCUAUUCACUCAAAGAUUGUAGCUCCUGCUCAUCUGAUU
.....(((((((.....(((((.......((((...(((((((.((((.(------------((.....)))))))..)))))))))))..))))))))))))....... ( -27.30)
>DroSec_CAF1 21401 98 - 1
AUAAUUGAGCAGAAAGCGAGCUUUGGCUAAAUCACACUUGAGUAGUGGUC------------UGCUAUUCAGCUAUUCACUCAAAGAUUGCAGCUCCUGCUCAUCUGAAU
.....(((((((((((....))))((((.((((....(((((((((((.(------------((.....)))))))).)))))).))))..)))).)))))))....... ( -29.30)
>DroSim_CAF1 28340 98 - 1
AUAAUUGAGCAGAAAGCGAACUCUACCUAAAUCACAUUGGAGUAGUGGUC------------UGCUAUUCAGCUAUUCACUCAAAGAUUGUAGCUACUGCUCAUCUGAUU
.....(((((((..((((.(((((((((((......)))).)))).))).------------))))....((((((((.......))..)))))).)))))))....... ( -28.20)
>DroYak_CAF1 27566 107 - 1
AUAAUUGAGCAAAAAGCUAACUUUGACUAAAUC---UUUGAGUGGCAGUCUUGUUCUGUGGCUGCUAUUCAGCCAUUGACUCAGACAUUUUAUCUCCUACCCAUCAGAUU
....((((((((((((....)))).........---.(((((((((((((.........)))))))))))))...))).))))).......................... ( -23.90)
>consensus
AUAAUUGAGCAGAAAGCGAACUUUGCCUAAAUCACAUUUGAGUAGUGGUC____________UGCUAUUCAGCUAUUCACUCAAAGAUUGUAGCUCCUGCUCAUCUGAUU
.....(((((((...........................(((((((.................)))))))(((((.((.......))...))))).)))))))....... (-13.47 = -14.53 +   1.06)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:52 2006