Locus 6544

Sequence ID 3L_DroMel_CAF1
Location 17,292,335 – 17,292,535
Length 200
Max. P 0.792524
window10644 window10645

overview

Window 4

Location 17,292,335 – 17,292,455
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 89.31
Mean single sequence MFE -31.75
Consensus MFE -24.34
Energy contribution -24.90
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -1.92
Structure conservation index 0.77
SVM decision value 0.59
SVM RNA-class probability 0.792524
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17292335 120 + 23771897
AAUCUAUUUAUUUGUCAAAGGCUCGCAAUUACAUCUACUUGUUUGAACAUCGCUGUAUUCCCUGGAAUAUGUUGCAUUGUGCCAUUGCCAGUGGAUGAGUGGAUGUAGUCCGCCUUCCAA
.................(((((.....((((((((((((..(((.......((.((((((....))))))...))((((.((....)))))))))..))))))))))))..))))).... ( -33.60)
>DroSec_CAF1 176138 110 + 1
AAUCUAUUUAUUUGUCAAAUGCUCGCAAUUACAUCUACUUGUUUGAACAUCGCUGUAUUCACUGGAAUAUGUUGCAUUGUGCCAUUGCCAGUGGAUGAGCGGAUGUAGUC----------
...........................((((((((....(((....))).((((.((((((((((...(((..((.....)))))..)))))))))))))))))))))).---------- ( -29.20)
>DroSim_CAF1 172356 120 + 1
AAUCUAUUUAUUUGUCAAAUGCUCGCAAUUACAUCUACUUGUUUGAACAUCGCUGUAUUCACUGGAAUAUGUUGCAUUGUGCCAUUGCCAGUGGAUGAGCGGAUGUAGUCCGCCUUCCAA
........................((.((((((((....(((....))).((((.((((((((((...(((..((.....)))))..))))))))))))))))))))))..))....... ( -31.30)
>DroYak_CAF1 184905 120 + 1
AAUUCAUUUAUAAUUGAAAGGCUUGCAAUUACAUCUACUUGUUUGAACAUCGCUGUACUCACUGGAAUAUGCUGCAUUGUGUCAUUGCCAGUGGAUGAGUGGAUGCAGCCCGCCUUCCAA
.............(((.(((((..((.....((((((((..((...(((....)))...(((((((((((((......)))).))).))))))))..))))))))..))..))))).))) ( -32.90)
>consensus
AAUCUAUUUAUUUGUCAAAGGCUCGCAAUUACAUCUACUUGUUUGAACAUCGCUGUAUUCACUGGAAUAUGUUGCAUUGUGCCAUUGCCAGUGGAUGAGCGGAUGUAGUCCGCCUUCCAA
...........................((((((((....(((....))).((((.((((((((((...(((..((.....)))))..))))))))))))))))))))))........... (-24.34 = -24.90 +   0.56)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,292,415 – 17,292,535
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 87.99
Mean single sequence MFE -34.89
Consensus MFE -30.54
Energy contribution -30.97
Covariance contribution 0.44
Combinations/Pair 1.11
Mean z-score -1.44
Structure conservation index 0.88
SVM decision value 0.20
SVM RNA-class probability 0.629705
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17292415 120 + 23771897
GCCAUUGCCAGUGGAUGAGUGGAUGUAGUCCGCCUUCCAAUCCUCGGAGAUUCCUAUAUAUAUAUAUAGUACCACGAUAUCUCCGGCCGCCGCUCUCCCCUGCCAAUUGCUGCCACUCCG
((.((((.(((.(((.((((((..((.(....)...........(((((((((((((((....))))))......)).)))))))))..))))))))).))).)))).)).......... ( -33.70)
>DroSec_CAF1 176218 105 + 1
GCCAUUGCCAGUGGAUGAGCGGAUGUAGUC-----------CCUCGGAGAUUCCUACAU----AUAUAGUGCCACGAUAUCUCCGGCCGCCGCUCUCCCCUGCCAAUUGCUGCCACUCAG
((.((((.(((.(((.((((((..((....-----------...(((((((((...(((----.....)))....)).)))))))))..))))))))).))).)))).)).......... ( -33.81)
>DroSim_CAF1 172436 116 + 1
GCCAUUGCCAGUGGAUGAGCGGAUGUAGUCCGCCUUCCAAUCCUCGGAGAUUCCUAUAU----AUAUAGUGCCACGAUAUCUCCGGCCGCCGCUCUCCCCUGCCAAUUGCUGCCACUCAG
((.((((.(((.(((.((((((((((((......((((.......))))....))))))----.....(.(((...........)))).))))))))).))).)))).)).......... ( -33.40)
>DroYak_CAF1 184985 114 + 1
GUCAUUGCCAGUGGAUGAGUGGAUGCAGCCCGCCUUCCAAUCCUCGGAGAUUCCUAU------AUAUAGUGCCACGGAAUCUCCGGCUGCCGCACUCCCCUGCCAAUUGCUGCCACUCAG
((.((((.(((.((..(((((...((((((.(.....).......(((((((((...------............)))))))))))))))..)))))))))).)))).)).......... ( -38.66)
>consensus
GCCAUUGCCAGUGGAUGAGCGGAUGUAGUCCGCCUUCCAAUCCUCGGAGAUUCCUAUAU____AUAUAGUGCCACGAUAUCUCCGGCCGCCGCUCUCCCCUGCCAAUUGCUGCCACUCAG
((.((((.(((.(((.((((((..((.(....)...........(((((((((((((((....))))))......)).)))))))))..))))))))).))).)))).)).......... (-30.54 = -30.97 +   0.44)

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 12:23:49 2006