Locus 168

Sequence ID 3L_DroMel_CAF1
Location 519,012 – 519,118
Length 106
Max. P 0.821666
window236 window237

overview

Window 6

Location 519,012 – 519,118
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.48
Mean single sequence MFE -23.54
Consensus MFE -20.61
Energy contribution -20.89
Covariance contribution 0.28
Combinations/Pair 1.09
Mean z-score -1.45
Structure conservation index 0.88
SVM decision value 0.68
SVM RNA-class probability 0.821666
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 519012 106 + 23771897
-------------AUCGAAGAAGCGGAGCG-GAGAAGAAGGCACAAGAGUGCACAAUUAAAUCUGGCGGAGAAGAAAGAUCUACAAGUUACUCUGCCACUUCCAAAGCUGAUAAUAAAAA
-------------.(((......)))(((.-(.((((...((((....))))...........((((((((...................)))))))))))))...)))........... ( -24.01)
>DroSec_CAF1 98784 106 + 1
-------------AUCGAAGAAGCGAAGCG-GAGAAGACGGCACAAGAGUGCACAAUUAAAUCUGGCGGAGAAGAAAGAUCUACAAGUUACUCUGCCACUUCCAAAGCUGAUAAUAAAAA
-------------.(((......)))(((.-(.((((...((((....))))...........((((((((...................)))))))))))))...)))........... ( -24.81)
>DroSim_CAF1 102734 106 + 1
-------------AUCGAAGAAGCGGAGCU-GAGAAGACGGCACAAGAGUGCACAAUUAAAUCUGGCGGAGAAGAAAGAUCUACAAGUUACUCUGCCACUUCCAAAGCUGAUAAUAAAAA
-------------.(((......)))((((-..((((...((((....))))...........((((((((...................))))))))))))...))))........... ( -25.21)
>DroEre_CAF1 102633 112 + 1
GGAG--------AAUCGAAGAAGCGGAGCGAGAGAAGAAGGCCCAAGAGUGCACAAUUAAUUCUGGCGGAGAAGAAAGAUCUACAAGUUACUCUGCCACUUCCAAAGCUGAUAAUAAAAA
....--------..(((......)))(((....((((........(((((.........)))))(((((((...................))))))).))))....)))........... ( -20.01)
>DroYak_CAF1 104819 120 + 1
GGAGAAUCAGAGAAUCGAAGAAGUGGAGCGAGCGAAGAAGGCACAAGAGUGCACAAUUAAUUCUGGCGGAGAAGAAAGAUCUACAAGUUACACAGCCACUUCCAAAGCUGAUAAUAAAAA
.....(((((.........(((((((....(((..(((..((((....)))).........(((..(......)..))))))....)))......))))))).....)))))........ ( -23.64)
>consensus
_____________AUCGAAGAAGCGGAGCG_GAGAAGAAGGCACAAGAGUGCACAAUUAAAUCUGGCGGAGAAGAAAGAUCUACAAGUUACUCUGCCACUUCCAAAGCUGAUAAUAAAAA
..............(((......)))(((....((((...((((....))))...........((((((((...................))))))))))))....)))........... (-20.61 = -20.89 +   0.28)

alignment

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secondary structure

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dotplot

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Window 7

Location 519,012 – 519,118
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.48
Mean single sequence MFE -23.00
Consensus MFE -18.86
Energy contribution -19.70
Covariance contribution 0.84
Combinations/Pair 1.04
Mean z-score -1.44
Structure conservation index 0.82
SVM decision value 0.27
SVM RNA-class probability 0.663317
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 519012 106 - 23771897
UUUUUAUUAUCAGCUUUGGAAGUGGCAGAGUAACUUGUAGAUCUUUCUUCUCCGCCAGAUUUAAUUGUGCACUCUUGUGCCUUCUUCUC-CGCUCCGCUUCUUCGAU-------------
..................((((.(((.((((.((...(((((((..(......)..)))))))...))((((....)))).........-.)))).))).))))...------------- ( -23.60)
>DroSec_CAF1 98784 106 - 1
UUUUUAUUAUCAGCUUUGGAAGUGGCAGAGUAACUUGUAGAUCUUUCUUCUCCGCCAGAUUUAAUUGUGCACUCUUGUGCCGUCUUCUC-CGCUUCGCUUCUUCGAU-------------
...........(((...((((((((((((((.((...(((((((..(......)..)))))))...))..))))...))))).))))).-.)))(((......))).------------- ( -24.10)
>DroSim_CAF1 102734 106 - 1
UUUUUAUUAUCAGCUUUGGAAGUGGCAGAGUAACUUGUAGAUCUUUCUUCUCCGCCAGAUUUAAUUGUGCACUCUUGUGCCGUCUUCUC-AGCUCCGCUUCUUCGAU-------------
...........((((..((((((((((((((.((...(((((((..(......)..)))))))...))..))))...))))).))))).-)))).............------------- ( -25.30)
>DroEre_CAF1 102633 112 - 1
UUUUUAUUAUCAGCUUUGGAAGUGGCAGAGUAACUUGUAGAUCUUUCUUCUCCGCCAGAAUUAAUUGUGCACUCUUGGGCCUUCUUCUCUCGCUCCGCUUCUUCGAUU--------CUCC
...........(((...(((((.((((((((.....(.(((.......))).)(((((......))).)))))))...)))..)))))...)))..............--------.... ( -19.00)
>DroYak_CAF1 104819 120 - 1
UUUUUAUUAUCAGCUUUGGAAGUGGCUGUGUAACUUGUAGAUCUUUCUUCUCCGCCAGAAUUAAUUGUGCACUCUUGUGCCUUCUUCGCUCGCUCCACUUCUUCGAUUCUCUGAUUCUCC
........(((((....((((((((..(((......(.(((.......))).)((.((((......(.((((....)))))))))..)).))).))))))))........)))))..... ( -23.00)
>consensus
UUUUUAUUAUCAGCUUUGGAAGUGGCAGAGUAACUUGUAGAUCUUUCUUCUCCGCCAGAUUUAAUUGUGCACUCUUGUGCCUUCUUCUC_CGCUCCGCUUCUUCGAU_____________
..................((((.(((.((((.((...(((((((..(......)..)))))))...))((((....))))...........)))).))).))))................ (-18.86 = -19.70 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:15 2006