Locus 1032

Sequence ID 2L_DroMel_CAF1
Location 2,916,726 – 2,916,827
Length 101
Max. P 0.997806
window1660 window1661

overview

Window 0

Location 2,916,726 – 2,916,827
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.22
Mean single sequence MFE -29.44
Consensus MFE -10.54
Energy contribution -12.74
Covariance contribution 2.20
Combinations/Pair 1.09
Mean z-score -2.84
Structure conservation index 0.36
SVM decision value 2.94
SVM RNA-class probability 0.997806
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2916726 101 + 22407834
GCGAGGGAAAAUAAAUAAAUUAUUGGUGCUGCCGAGGAAAUUCU---CGCAACG-------------GUAUGAAAAAUCGGCGGGG---AAAAAAACGAGCAGCAAUUUUUCCUUUUAAU
..((((((((((.((((...))))..((((((((......((((---(((..((-------------((.......))))))))))---)......)).))))))))))))))))..... ( -28.10)
>DroSec_CAF1 35158 113 + 1
GCGAGGGAAAAUAAAUAAAUUAUUGGUGCUGCCAAGGAAAUUCC---CCCAAGGAAUCGCGGGGGGGAAAUGAAAAGUCGGCGGG----AAAAAAGCGAGCUGCAAUUUUUCCUUUUAAU
..((((((((((..........((..(.(((((.......((((---(((..(......)..)))))))..((....))))))).----)..)).((.....)).))))))))))..... ( -32.10)
>DroSim_CAF1 35833 117 + 1
GCGAGGGAAAAUAAAUAAAUUAUUGGUGCUGCCGAGGAAAUUCC---CCCAACGAAUCGCGGGGGGGAAAUGAAAAGUCGGCGGGGGAAAAAAAAGCGAGCAGCAAUUUUUCCUUUUAAU
..((((((((((................(((((((.....((((---(((..((...))..)))))))..(....).)))))))...........((.....)).))))))))))..... ( -35.30)
>DroEre_CAF1 36009 95 + 1
GCGAGGAAAAAUAAAUAAAUUAUUGCCACUGCCGAGGAAAUUCCUCCCCGAACGAAA------------------AA----CGGGU---GGAAAAGCAAGCAGCAAUUUUUCCUUUUAAU
..((((((((((.............((((....((((.....)))).(((.......------------------..----)))))---))....((.....)).))))))))))..... ( -23.70)
>DroYak_CAF1 36124 106 + 1
GCGAGGAAAAAUAAAUAAAUUAUUGGUACUGCCGCGGAAAUCCC---CCCAACGAAACG--GUUGGGAAAAGA--AG----GGGGA---GAAAAAGCAAGAAGCAAUUCUUCCUUUUAAU
(((.(((..(((((.....)))))..).))..)))((....)).---((((((......--)))))).....(--((----(((((---(((...((.....))..)))))))))))... ( -28.00)
>consensus
GCGAGGGAAAAUAAAUAAAUUAUUGGUGCUGCCGAGGAAAUUCC___CCCAACGAAACG__G__GGGAAAUGAAAAGUCGGCGGGG___AAAAAAGCGAGCAGCAAUUUUUCCUUUUAAU
..((((((((((................(((((..((.....))...(((..............)))............)))))...........((.....)).))))))))))..... (-10.54 = -12.74 +   2.20) 

alignment

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secondary structure

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dotplot

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Window 1

Location 2,916,726 – 2,916,827
Length 101
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.22
Mean single sequence MFE -24.93
Consensus MFE -9.97
Energy contribution -9.25
Covariance contribution -0.72
Combinations/Pair 1.35
Mean z-score -2.41
Structure conservation index 0.40
SVM decision value 1.87
SVM RNA-class probability 0.980725
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2916726 101 - 22407834
AUUAAAAGGAAAAAUUGCUGCUCGUUUUUUU---CCCCGCCGAUUUUUCAUAC-------------CGUUGCG---AGAAUUUCCUCGGCAGCACCAAUAAUUUAUUUAUUUUCCCUCGC
.......((((((..((((((.((.....((---(..(((((...........-------------))..)))---.)))......))))))))....(((.....)))))))))..... ( -18.20)
>DroSec_CAF1 35158 113 - 1
AUUAAAAGGAAAAAUUGCAGCUCGCUUUUUU----CCCGCCGACUUUUCAUUUCCCCCCCGCGAUUCCUUGGG---GGAAUUUCCUUGGCAGCACCAAUAAUUUAUUUAUUUUCCCUCGC
.......(((((((..((.....)).)))))----)).(((((........(((((((............)))---)))).....))))).............................. ( -24.62)
>DroSim_CAF1 35833 117 - 1
AUUAAAAGGAAAAAUUGCUGCUCGCUUUUUUUUCCCCCGCCGACUUUUCAUUUCCCCCCCGCGAUUCGUUGGG---GGAAUUUCCUCGGCAGCACCAAUAAUUUAUUUAUUUUCCCUCGC
.......((((((..((((((.((.......((((((((.(((....((.............)).))).))))---))))......))))))))....(((.....)))))))))..... ( -30.14)
>DroEre_CAF1 36009 95 - 1
AUUAAAAGGAAAAAUUGCUGCUUGCUUUUCC---ACCCG----UU------------------UUUCGUUCGGGGAGGAAUUUCCUCGGCAGUGGCAAUAAUUUAUUUAUUUUUCCUCGC
......((((((((((((..((.(((.....---.((((----..------------------.......))))((((.....)))))))))..))))(((.....)))))))))))... ( -29.50)
>DroYak_CAF1 36124 106 - 1
AUUAAAAGGAAGAAUUGCUUCUUGCUUUUUC---UCCCC----CU--UCUUUUCCCAAC--CGUUUCGUUGGG---GGGAUUUCCGCGGCAGUACCAAUAAUUUAUUUAUUUUUCCUCGC
......(((((((((((((....((......---(((((----(.--........((((--......))))))---)))).....))))))))....((((.....)))))))))))... ( -22.20)
>consensus
AUUAAAAGGAAAAAUUGCUGCUCGCUUUUUU___CCCCGCCGACUUUUCAUUUCCC__C__CGAUUCGUUGGG___GGAAUUUCCUCGGCAGCACCAAUAAUUUAUUUAUUUUCCCUCGC
.......((((((..(((((((.....((((....(((................................)))...)))).......)))))))....(((.....)))))))))..... ( -9.97 =  -9.25 +  -0.72) 

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 09:51:36 2006