Locus 6593

Sequence ID 3L_DroMel_CAF1
Location 17,497,269 – 17,497,422
Length 153
Max. P 0.911088
window10736 window10737

overview

Window 6

Location 17,497,269 – 17,497,385
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 73.15
Mean single sequence MFE -26.57
Consensus MFE -15.41
Energy contribution -17.37
Covariance contribution 1.96
Combinations/Pair 1.17
Mean z-score -1.75
Structure conservation index 0.58
SVM decision value 1.07
SVM RNA-class probability 0.911088
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17497269 116 - 23771897
GCAAAACAAUAGAAAAGCC-CAUUCCAGACACUAAGUAAACAACGAUGAUGCCAGUUUAUUUUCUGGCGGCUUCCUAAUACUUUUCUUGGCACUUUUCU--GCU-CUUCGGAAAGUGCAA
.........(((..(((((-....(((((....((((((((.............))))))))))))).))))).)))............(((((((((.--...-....))))))))).. ( -27.42)
>DroSec_CAF1 4765 116 - 1
GCAAAACAAUGGAAUAGCC-CAUUCCAGACACUAAGCAAACAACAAUGAUGCCAGUUUAUUUUCUGGCGGCUACCUAAUACUUUUCUUGGCACUUUUCG--GCU-CUUUGAAAAGUGCAA
......(((((((((....-.)))))).......(((...((....)).((((((........)))))))))..............)))((((((((((--(..-..))))))))))).. ( -28.90)
>DroSim_CAF1 4473 116 - 1
GCAAAACAAUGGAAUAGCC-CAUUCCAGACACUAAGCAAACAACGAUGAUGCCAGUUUAUUUUCUGGCGGCUACCAAAUACUUUUCUUGGCACUUUUCU--GCU-CUUCGGAAAGUGCAA
.........(((..(((((-((((....................))))..(((((........))))))))))))).............(((((((((.--...-....))))))))).. ( -28.45)
>DroEre_CAF1 10330 89 - 1
GCAAAACAAUGGAAUAGCC-CAUUCCAGACACUAAGUAAACAAGAAUGAUGCCAGUUUAUUUUCUGGCGGUUUCCAAAUACUUU------------------------CGGAA------A
.........(((((..(((-(((((...((.....))......)))))..(((((........)))))))))))))........------------------------.....------. ( -18.80)
>DroYak_CAF1 10072 111 - 1
GCACAACAAUGGAAUAGCC-CAUUCCAGACACUAAGUAAACAACAAUGAUGCCAGUUUAUUUUCUGGCGGCUUCAUAAUACUUUUCUUGGCACCCUUCU--G------CGAAAAGUGCAA
((((.....(((......)-))(((((((..(((((.........((((((((((........))))))...)))).........)))))......)))--)------.)))..)))).. ( -26.17)
>DroAna_CAF1 9480 101 - 1
GUCGGCCAGUCGGCGAGCCACAUUCCAGACGAGGGCCAAACA------------CUUUUUUUUC----GGCU--CGACUGCUUAUC-AGGCACUUUUCGCUGCCAACUGGAAAAGUGCAA
...((((.(((((.((......)))).)))...))))...((------------(((((((...----(((.--(((.((((....-.))))....)))..)))....)))))))))... ( -29.70)
>consensus
GCAAAACAAUGGAAUAGCC_CAUUCCAGACACUAAGCAAACAACAAUGAUGCCAGUUUAUUUUCUGGCGGCUUCCUAAUACUUUUCUUGGCACUUUUCU__GCU_CUUCGAAAAGUGCAA
((.......((((((......))))))......................((((((........))))))))..................(((((((((...........))))))))).. (-15.41 = -17.37 +   1.96)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,497,306 – 17,497,422
Length 116
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 95.86
Mean single sequence MFE -26.68
Consensus MFE -23.12
Energy contribution -23.32
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.27
Structure conservation index 0.87
SVM decision value 0.05
SVM RNA-class probability 0.559177
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17497306 116 - 23771897
CUGAGAUGGCGAGCGAAUUAUUUGUUUAUACAAGUGAGCAAAACAAUAGAAAAGCCCAUUCCAGACACUAAGUAAACAACGAUGAUGCCAGUUUAUUUUCUGGCGGCUUCCUAAUA
(((..(((((...(......(((((((((....)))))))))......)....).))))..)))................((...((((((........))))))...))...... ( -25.30)
>DroSec_CAF1 4802 116 - 1
CUGAGAUGGCGAGCGAAUUAUUUGUUUAUACAAGUGAGCAAAACAAUGGAAUAGCCCAUUCCAGACACUAAGCAAACAACAAUGAUGCCAGUUUAUUUUCUGGCGGCUACCUAAUA
...((.((((..((......(((((((((....)))))))))....((((((.....))))))........))............((((((........)))))))))).)).... ( -27.90)
>DroSim_CAF1 4510 116 - 1
CUGAGAUGGCGAGCGAAUUAUUUGUUUAUACAAGUGAGCAAAACAAUGGAAUAGCCCAUUCCAGACACUAAGCAAACAACGAUGAUGCCAGUUUAUUUUCUGGCGGCUACCAAAUA
....(.((((..((......(((((((((....)))))))))....((((((.....))))))........))............((((((........)))))))))).)..... ( -27.10)
>DroEre_CAF1 10340 116 - 1
CUGAGAUGGCGAGCGAAUUAUUUGUUUAUACAAGUGAGCAAAACAAUGGAAUAGCCCAUUCCAGACACUAAGUAAACAAGAAUGAUGCCAGUUUAUUUUCUGGCGGUUUCCAAAUA
......(((.((((......(((((((((...((((.(.....)..((((((.....))))))..))))..))))))))).....((((((........))))))))))))).... ( -27.10)
>DroYak_CAF1 10104 116 - 1
CUGAGAUGGCGAGCGAAUUAUUUGUUUAUACAAGUGAGCACAACAAUGGAAUAGCCCAUUCCAGACACUAAGUAAACAACAAUGAUGCCAGUUUAUUUUCUGGCGGCUUCAUAAUA
.....(((..((((..(((((((((((((...((((.(.....)..((((((.....))))))..))))..)))))))..))))))(((((........))))).))))))).... ( -26.00)
>consensus
CUGAGAUGGCGAGCGAAUUAUUUGUUUAUACAAGUGAGCAAAACAAUGGAAUAGCCCAUUCCAGACACUAAGUAAACAACAAUGAUGCCAGUUUAUUUUCUGGCGGCUUCCUAAUA
(((..(((((......(((.(((((((((....)))))))))..)))......).))))..))).....................((((((........))))))........... (-23.12 = -23.32 +   0.20)

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 12:25:16 2006