Locus 715

Sequence ID 3L_DroMel_CAF1
Location 2,166,891 – 2,167,028
Length 137
Max. P 0.743001
window1096 window1097

overview

Window 6

Location 2,166,891 – 2,166,991
Length 100
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 80.77
Mean single sequence MFE -27.63
Consensus MFE -16.99
Energy contribution -16.77
Covariance contribution -0.22
Combinations/Pair 1.29
Mean z-score -1.53
Structure conservation index 0.61
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2166891 100 - 23771897
GCAAAUUGCCUGCGGGCAGAGCGGUCGGCUGCGGGGGAAAUCAUGAAAAAUCGUUAAUUGUGCAAAGUGCUGGACGUUUUUCAUUAAAGUUUUCCCCAG-C
((...(((((....))))).((((....))))(((((((((.((((((((.((((....(..(...)..)..))))))))))))....))))))))).)-) ( -35.90)
>DroPse_CAF1 257008 98 - 1
GCAAAUUGCCUG--ACCAGCGUGAACGAGGAGGAGAAAAAUCAUGAAAAAUCGUUAAUUGUGCAAAGUGCUCGACGUUUUUCAUUAAAGUUUUCCUUUG-C
((((........--.((..((....)).))(((((((.....((((((((.((((....(..(...)..)..)))))))))))).....))))))))))-) ( -22.80)
>DroEre_CAF1 223693 99 - 1
GCAAAUUGCCUGCGGGCAGGGCGGUCGGCUG-GGGGGAAAUCAUGAAAAAUCGUUAAUUGUGCAAAGUGCUGGACGUUUUUCAUUAAAGUUUUCCCUCG-G
((...(((((....))))).))......(((-(((((((((.((((((((.((((....(..(...)..)..))))))))))))....)))))))))))-) ( -35.50)
>DroWil_CAF1 270134 97 - 1
GCAAAUUGCCUUUUGCCUGGAAGGGAUGGAGUGAAAAAAAUCAUGAAAAAUCGUUAAUUGUGUAAAGUGCUGGACGUUUUUCAUUAAAGUUUUCUCU----
........((((((....)))))).....((.(((((.....((((((((.((((.(((......)))....)))))))))))).....))))).))---- ( -18.30)
>DroAna_CAF1 214605 96 - 1
GCAAAUUGCCUGCGGGCAGUGCGGGU-----CGGAGAAAAUCAUGAAAAAUCGUUAAUUGUGCAAAGUGCUGGACGUUUUUCAUUAAAGUUUCCCUCGCCU
....((((((....))))))(((((.-----.(((((.....((((((((.((((....(..(...)..)..)))))))))))).....)))))))))).. ( -30.50)
>DroPer_CAF1 236652 98 - 1
GCAAAUUGCCUG--ACCAGCGUGAACGAGGAGGAGAAAAAUCAUGAAAAAUCGUUAAUUGUGCAAAGUGCUCGACGUUUUUCAUUAAAGUUUUCCUUUG-C
((((........--.((..((....)).))(((((((.....((((((((.((((....(..(...)..)..)))))))))))).....))))))))))-) ( -22.80)
>consensus
GCAAAUUGCCUGCGGCCAGCGCGGACGGGGGCGAGAAAAAUCAUGAAAAAUCGUUAAUUGUGCAAAGUGCUGGACGUUUUUCAUUAAAGUUUUCCCUUG_C
.....(((((((....))).))))........(((((((...((((((((.((((....(..(...)..)..)))))))))))).....)))))))..... (-16.99 = -16.77 +  -0.22) 

alignment

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secondary structure

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dotplot

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Window 7

Location 2,166,915 – 2,167,028
Length 113
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 79.31
Mean single sequence MFE -25.65
Consensus MFE -19.67
Energy contribution -21.17
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -1.28
Structure conservation index 0.77
SVM decision value 0.45
SVM RNA-class probability 0.743001
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2166915 113 + 23771897
-CGUCCAGCACUUUGCACAAUUAACGAUUUUUCAUGAUUUCCCCCGCAGCCGACCGCUCUGCCCGCAGGCAAUUUGCAUAAAUCAGUGCAAAGUAUCUGUGACACAUGGAGA--GC
-.((((((.(((((((((.......((....)).((((((.....(((((.....))..((((....))))...)))..)))))))))))))))..))).))).........--.. ( -30.10)
>DroVir_CAF1 240641 98 + 1
GCGUCCAGCACUUGGCACAAUUAACGAUUUUUCAUGAUUUCAGUC----------------CAUGCAAGCAAUUUGCAUAAAUCAGUGCAAAGUAUCUGUGACAACGCAAAA--GA
..((((((.((((.((((.......((....)).((((((.....----------------.(((((((...))))))))))))))))).))))..))).))).........--.. ( -22.90)
>DroPse_CAF1 257032 113 + 1
-CGUCGAGCACUUUGCACAAUUAACGAUUUUUCAUGAUUUUUCUCCUCCUCGUUCACGCUGGU--CAGGCAAUUUGCAUAAAUCAGUGCAAAGUAUCUGUGACACAUGGAGAGAGC
-.((((.((.....)).........((....)).))))....(((((((..(((((((((...--..)))..(((((((......)))))))......)))).))..)))).))). ( -26.30)
>DroWil_CAF1 270155 113 + 1
-CGUCCAGCACUUUACACAAUUAACGAUUUUUCAUGAUUUUUUUCACUCCAUCCCUUCCAGGCAAAAGGCAAUUUGCAUAAAUCAGUGCAAAGUAUCUGUGACACAUGACUA--AA
-.((((((.(((((.(((.......((....)).((((((.....................(((((......)))))..))))))))).)))))..))).))).........--.. ( -18.70)
>DroAna_CAF1 214630 108 + 1
-CGUCCAGCACUUUGCACAAUUAACGAUUUUUCAUGAUUUUCUCCG-----ACCCGCACUGCCCGCAGGCAAUUUGCAUAAAUCAGUGCAAAGUAUCUGUGACACAUGGAGA--GC
-.((((((.(((((((((.......((....)).((((((....((-----(...((.(((....)))))...)))...)))))))))))))))..))).))).........--.. ( -29.60)
>DroPer_CAF1 236676 113 + 1
-CGUCGAGCACUUUGCACAAUUAACGAUUUUUCAUGAUUUUUCUCCUCCUCGUUCACGCUGGU--CAGGCAAUUUGCAUAAAUCAGUGCAAAGUAUCUGUGACACAUGGAGAGAGC
-.((((.((.....)).........((....)).))))....(((((((..(((((((((...--..)))..(((((((......)))))))......)))).))..)))).))). ( -26.30)
>consensus
_CGUCCAGCACUUUGCACAAUUAACGAUUUUUCAUGAUUUUUCUCC__C_CGCCCACGCUGCC_GCAGGCAAUUUGCAUAAAUCAGUGCAAAGUAUCUGUGACACAUGGAGA__GC
..((((((.(((((((((.......((....)).((((((..................(((....)))((.....))..)))))))))))))))..))).)))............. (-19.67 = -21.17 +   1.50) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:18 2006