Locus 7046

Sequence ID 3L_DroMel_CAF1
Location 19,090,382 – 19,090,483
Length 101
Max. P 0.951513
window11428 window11429

overview

Window 8

Location 19,090,382 – 19,090,483
Length 101
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 78.95
Mean single sequence MFE -21.87
Consensus MFE -19.03
Energy contribution -18.75
Covariance contribution -0.28
Combinations/Pair 1.05
Mean z-score -1.68
Structure conservation index 0.87
SVM decision value 1.06
SVM RNA-class probability 0.908654
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19090382 101 + 23771897
-AAAUAAAAGGGCAAGG--GGGAAAAAACCAAAACUCAAAGUCUCGAGCAGUCACUUAAGCUUAAGUGUUGUUGUGCGCCAACCAUUUUGUGGCCACAACAAUA
-........(((....(--(........))....))).....((..(((..........)))..))((((((((((.((((.........)))))))))))))) ( -25.00)
>DroSim_CAF1 7854 101 + 1
-AAAUAAAAUGGAAAGG--AGGAAACAACAAAAACUCAAAGUCUCGAGCAGUCACUUAAGCUUAAGUGUUGUUGUGCGCCAACCAUUUUGUGGCCACAACAAUA
-..(((((((((...((--.....(((((((...(((........)))....((((((....)))))))))))))...))..)))))))))............. ( -22.90)
>DroEre_CAF1 8529 95 + 1
-AAAUAAAAUGGAAAAG--GGGGAA------GAACACAAAGUCUCGAGCAGUCACUUAAGCUUAAGUGUUGUUGUGCGCCAACCAUUUUGUGGCCACAACAAUA
-................--......------.(((((.(((.((..((......))..)))))..)))))((((((.((((.........)))))))))).... ( -21.20)
>DroWil_CAF1 15065 95 + 1
UCAUUAUGAUGUUGGUU--GUCG------U-CUCACAAAAGUCUCGAGUAGUCACUUAAACUUAAGUGUUGUUGUGCGCCAACCAUUUUGUGGCCACAACAAUA
.......((((......--..))------)-).(((..((((.(..(((....)))..)))))..)))((((((((.((((.........)))))))))))).. ( -22.10)
>DroYak_CAF1 7756 97 + 1
-AAAUAAAAUGGGAAAAGAGGGGGA------AAAGAGAAAGUCUCGAGCAGUCACUUAAGCUUAAGUGUUGUUGUGCGCCAACCAUUUUGUGGCCACAACAAUA
-........((((..(((.((..(.------...(((.....)))...)..)).)))...))))..((((((((((.((((.........)))))))))))))) ( -23.40)
>DroAna_CAF1 8908 96 + 1
-ACACAAA-CACACACACACAG-----ACC-AAGUCAAAAGUCUCGAGUAGUCACUUAAACUUAAGUGUUGUUGUGCACCAACCAUUUUGUGGCCACAACAAUA
-.....((-(((.........(-----((.-..)))..((((.(..(((....)))..)))))..)))))((((((..(((.........))).)))))).... ( -16.60)
>consensus
_AAAUAAAAUGGAAAAG__GGGGAA______AAACACAAAGUCUCGAGCAGUCACUUAAGCUUAAGUGUUGUUGUGCGCCAACCAUUUUGUGGCCACAACAAUA
..........................................((..(((..........)))..))((((((((((.((((.........)))))))))))))) (-19.03 = -18.75 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,090,382 – 19,090,483
Length 101
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 78.95
Mean single sequence MFE -24.23
Consensus MFE -20.09
Energy contribution -19.95
Covariance contribution -0.14
Combinations/Pair 1.05
Mean z-score -2.10
Structure conservation index 0.83
SVM decision value 1.41
SVM RNA-class probability 0.951513
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19090382 101 - 23771897
UAUUGUUGUGGCCACAAAAUGGUUGGCGCACAACAACACUUAAGCUUAAGUGACUGCUCGAGACUUUGAGUUUUGGUUUUUUCCC--CCUUGCCCUUUUAUUU-
..(((((((((((((......).)))).))))))))((((((....))))))...((.((((((.....))))))))........--................- ( -25.10)
>DroSim_CAF1 7854 101 - 1
UAUUGUUGUGGCCACAAAAUGGUUGGCGCACAACAACACUUAAGCUUAAGUGACUGCUCGAGACUUUGAGUUUUUGUUGUUUCCU--CCUUUCCAUUUUAUUU-
..(((((((((((((......).)))).))))))))((((((....))))))...((((((....))))))..............--................- ( -24.10)
>DroEre_CAF1 8529 95 - 1
UAUUGUUGUGGCCACAAAAUGGUUGGCGCACAACAACACUUAAGCUUAAGUGACUGCUCGAGACUUUGUGUUC------UUCCCC--CUUUUCCAUUUUAUUU-
...((((((((((((......).)))).)))))))((((..(((((..(((....)))..)).))).))))..------......--................- ( -24.10)
>DroWil_CAF1 15065 95 - 1
UAUUGUUGUGGCCACAAAAUGGUUGGCGCACAACAACACUUAAGUUUAAGUGACUACUCGAGACUUUUGUGAG-A------CGAC--AACCAACAUCAUAAUGA
..(((((((((((((......).)))).))))))))(((..((((((.(((....)))..))))))..)))..-.------....--................. ( -24.00)
>DroYak_CAF1 7756 97 - 1
UAUUGUUGUGGCCACAAAAUGGUUGGCGCACAACAACACUUAAGCUUAAGUGACUGCUCGAGACUUUCUCUUU------UCCCCCUCUUUUCCCAUUUUAUUU-
..(((((((((((((......).)))).))))))))((((((....)))))).......(((.....)))...------........................- ( -22.90)
>DroAna_CAF1 8908 96 - 1
UAUUGUUGUGGCCACAAAAUGGUUGGUGCACAACAACACUUAAGUUUAAGUGACUACUCGAGACUUUUGACUU-GGU-----CUGUGUGUGUGUG-UUUGUGU-
..(((((((((((((......).)))).))))))))((((((....))))))(((((.(((((((........-)))-----)).)).))).)).-.......- ( -25.20)
>consensus
UAUUGUUGUGGCCACAAAAUGGUUGGCGCACAACAACACUUAAGCUUAAGUGACUGCUCGAGACUUUGAGUUU______UUCCCC__CCUUUCCAUUUUAUUU_
..(((((((((((((......).)))).))))))))((((((....)))))).................................................... (-20.09 = -19.95 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:22 2006