Locus 3667

Sequence ID 2L_DroMel_CAF1
Location 10,664,446 – 10,664,543
Length 97
Max. P 0.954327
window5787 window5788

overview

Window 7

Location 10,664,446 – 10,664,543
Length 97
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 77.94
Mean single sequence MFE -20.50
Consensus MFE -14.30
Energy contribution -14.08
Covariance contribution -0.22
Combinations/Pair 1.16
Mean z-score -2.06
Structure conservation index 0.70
SVM decision value 1.44
SVM RNA-class probability 0.954327
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10664446 97 + 22407834
CCAGAUAUGUAUCUAUCUAUGUG------UACUUACAACUCGUAUAGCACAGAGGGACACCUCUAGCGGCUGACAAUAACAAAUUGAAAUUGUCAACGCCACA
..(((((......)))))..(((------(...(((.....)))..))))(((((....))))).(.((((((((((..(.....)..)))))))..))).). ( -25.00)
>DroSec_CAF1 17614 92 + 1
CCAGAUAUGUAUCUAUCUAUGUG------CACUUACAACUCGUAU-----AGAGGGACACCUCUCGUGGCUGACAAUAACAAAUUGAAAUUGUCAACGCCACA
..(((((......))))).((((------(...........))))-----)((((....))))..((((((((((((..(.....)..)))))))..))))). ( -24.30)
>DroSim_CAF1 17574 97 + 1
CCAGAUAUGUAUCUAUCUAUGUG------CACUUACAACUCGUAUCGCACAGAGGGACACCUCUCGCGGCUGACAAUAACAAAUUGAAAUUGUCAACGCCACA
..(((((......))))).((((------(...(((.....)))..)))))((((....))))..(.((((((((((..(.....)..)))))))..))).). ( -26.50)
>DroEre_CAF1 20035 90 + 1
CCAGAUUUGUAUCUAUCCAUGUG------UAUUCA-------UAUCGCACAGAGGGACACCUCUCGCGGCAGACAAUAACAAAUUGAAAUUGUCAACGCCACA
..((((....))))....(((((------....))-------))).((..(((((....))))).))(((.((((((..(.....)..))))))...)))... ( -20.60)
>DroYak_CAF1 18629 98 + 1
CCAGAUAUGUAUCUAUGAAUGUAGCUAUGUAAGUAUC-----AACCACACAGAGGGACACCUCUCGCGGCAAACAAUAACAAAUUGAAAUUGUCAACGCCACA
...((((((((.((((....)))).)))....)))))-----........(((((....))))).(.(((..(((((..(.....)..)))))....))).). ( -17.40)
>DroAna_CAF1 11892 87 + 1
CUAGAUACCAAUUUUUUUAUAAA------UA--AACGACU--------GCAAGGGAACACCUUUUACGGCAAACAAUAACAAAUUGAAAUUGUCAACGCCACA
.......................------..--.......--------((((((.....))))....(((((.((((.....))))...)))))...)).... (  -9.20)
>consensus
CCAGAUAUGUAUCUAUCUAUGUG______UACUUACAACU__UAUCGCACAGAGGGACACCUCUCGCGGCAGACAAUAACAAAUUGAAAUUGUCAACGCCACA
..((((....))))....................................(((((....)))))...(((.((((((..(.....)..))))))...)))... (-14.30 = -14.08 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 8

Location 10,664,446 – 10,664,543
Length 97
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 77.94
Mean single sequence MFE -26.43
Consensus MFE -19.96
Energy contribution -19.93
Covariance contribution -0.02
Combinations/Pair 1.26
Mean z-score -1.89
Structure conservation index 0.75
SVM decision value 1.39
SVM RNA-class probability 0.948928
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10664446 97 - 22407834
UGUGGCGUUGACAAUUUCAAUUUGUUAUUGUCAGCCGCUAGAGGUGUCCCUCUGUGCUAUACGAGUUGUAAGUA------CACAUAGAUAGAUACAUAUCUGG
.(((((..(((((((..(.....)..)))))))))))).(((((....)))))(((((.(((.....)))))))------)...((((((......)))))). ( -30.70)
>DroSec_CAF1 17614 92 - 1
UGUGGCGUUGACAAUUUCAAUUUGUUAUUGUCAGCCACGAGAGGUGUCCCUCU-----AUACGAGUUGUAAGUG------CACAUAGAUAGAUACAUAUCUGG
((((..(((((((((..(.....)..)))))))))(((.(((((....)))))-----.(((.....))).)))------))))((((((......)))))). ( -26.30)
>DroSim_CAF1 17574 97 - 1
UGUGGCGUUGACAAUUUCAAUUUGUUAUUGUCAGCCGCGAGAGGUGUCCCUCUGUGCGAUACGAGUUGUAAGUG------CACAUAGAUAGAUACAUAUCUGG
.(((((..(((((((..(.....)..)))))))))))).(((((....)))))(((((.(((.....)))..))------))).((((((......)))))). ( -32.50)
>DroEre_CAF1 20035 90 - 1
UGUGGCGUUGACAAUUUCAAUUUGUUAUUGUCUGCCGCGAGAGGUGUCCCUCUGUGCGAUA-------UGAAUA------CACAUGGAUAGAUACAAAUCUGG
.((((((..((((((..(.....)..)))))))))))).(((.(((((..((((((.(...-------......------).))))))..)))))...))).. ( -27.10)
>DroYak_CAF1 18629 98 - 1
UGUGGCGUUGACAAUUUCAAUUUGUUAUUGUUUGCCGCGAGAGGUGUCCCUCUGUGUGGUU-----GAUACUUACAUAGCUACAUUCAUAGAUACAUAUCUGG
(((((((((((.....))))).(((...((((.(((((((((((....))))).)))))).-----))))...)))..))))))....(((((....))))). ( -29.40)
>DroAna_CAF1 11892 87 - 1
UGUGGCGUUGACAAUUUCAAUUUGUUAUUGUUUGCCGUAAAAGGUGUUCCCUUGC--------AGUCGUU--UA------UUUAUAAAAAAAUUGGUAUCUAG
...((((..((((((..(.....)..))))))))))....((((.....)))).(--------(((..((--(.------......)))..))))........ ( -12.60)
>consensus
UGUGGCGUUGACAAUUUCAAUUUGUUAUUGUCAGCCGCGAGAGGUGUCCCUCUGUGCGAUA__AGUUGUAAGUA______CACAUAGAUAGAUACAUAUCUGG
.(((((...((((((..(.....)..)))))).))))).(((((....)))))...............................((((((......)))))). (-19.96 = -19.93 +  -0.02)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:14 2006