Locus 6083

Sequence ID 3R_DroMel_CAF1
Location 15,963,713 – 15,963,819
Length 106
Max. P 0.999765
window9921 window9922

overview

Window 1

Location 15,963,713 – 15,963,819
Length 106
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 91.65
Mean single sequence MFE -40.02
Consensus MFE -36.39
Energy contribution -36.87
Covariance contribution 0.47
Combinations/Pair 1.10
Mean z-score -2.64
Structure conservation index 0.91
SVM decision value 3.07
SVM RNA-class probability 0.998343
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15963713 106 + 27905053
--GUGAUGGG--------GACUUGCACCUGCAGCCACAUGCCUCGAUAGGCAAGUUUUGGUUGCUUGGCUGGGCACUUUUAUGUAAAUCUGCUAAAUUAAGUGCCAGCCGCUUGUC
--........--------(((..((....((((((((.(((((....))))).))...))))))..((((((.(((((....(((....)))......)))))))))))))..))) ( -40.00)
>DroSec_CAF1 90060 106 + 1
--GUGAUGGG--------GACUUGCACCUGCAGCCACAUGCCUCGAUAGGCAAGUUUUGGCUGCUUGGCUGGGCACUUUUAUGAAAAUCUGCUAAAUUAAGUGCCAGCCGCUUGUC
--........--------(((..((....((((((((.(((((....))))).))...))))))..((((((.(((((....................)))))))))))))..))) ( -40.35)
>DroSim_CAF1 65912 106 + 1
--GUGAUGGG--------GACUUGCACCUGCAGCCACAUGCCUCGAUAGGCAAGUUUUGGCUGCUUGGCUGGGCACUUUUAUGUAAAUCUGCUAAAUUAAGUGCCAGCCGCUUGUC
--........--------(((..((....((((((((.(((((....))))).))...))))))..((((((.(((((....(((....)))......)))))))))))))..))) ( -42.40)
>DroEre_CAF1 65047 106 + 1
--GUGAUGGG--------GACUUGCACCUGCAGCCAUGUGGCUCGAUAGGCAAGUUUUGGCUGCUUGGCCGGGCACUUUUAUGUAAAUCUGCUAAAUUAAGUGCCAGUCGCUUGUC
--(((((.((--------(((((((...((.((((....))))))....)))))))))((((....)))).(((((((....(((....)))......))))))).)))))..... ( -37.60)
>DroYak_CAF1 94340 106 + 1
--GUGAUGGG--------GACUUGCACCUGCAGCCACACGCCUCGAUAGGCAAGUUUUGGCUGCUUGGCUGGGCACUUUUAUGUAAAUCUGCUAAAUUAAGUGCCAGUCGCUUGUC
--..((..((--------((((..((((.(((((((.((((((....))))..))..)))))))..)).))(((((((....(((....)))......))))))))))).))..)) ( -39.20)
>DroAna_CAF1 58959 116 + 1
UUUUGAUGGAGGAAGCGGUCCUUGCACCUGCAGCCAUAUGCCCUGAUAGGCAAGUUUUGGCUGCUCGACUGGGCACUUUUAUGUAAAUCUGCUAAAUUAAGUGCCAGUCGCUUGUC
........(((((.....)))))((....(((((((..((((......)))).....)))))))..((((((.(((((....(((....)))......)))))))))))))..... ( -40.60)
>consensus
__GUGAUGGG________GACUUGCACCUGCAGCCACAUGCCUCGAUAGGCAAGUUUUGGCUGCUUGGCUGGGCACUUUUAUGUAAAUCUGCUAAAUUAAGUGCCAGCCGCUUGUC
..................(((..((....(((((((..((((......)))).....)))))))..((((((.(((((....(((....)))......)))))))))))))..))) (-36.39 = -36.87 +   0.47)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,963,713 – 15,963,819
Length 106
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 91.65
Mean single sequence MFE -37.52
Consensus MFE -34.43
Energy contribution -34.85
Covariance contribution 0.42
Combinations/Pair 1.14
Mean z-score -3.35
Structure conservation index 0.92
SVM decision value 4.03
SVM RNA-class probability 0.999765
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15963713 106 - 27905053
GACAAGCGGCUGGCACUUAAUUUAGCAGAUUUACAUAAAAGUGCCCAGCCAAGCAACCAAAACUUGCCUAUCGAGGCAUGUGGCUGCAGGUGCAAGUC--------CCCAUCAC--
(((..(((((((((((((....................))))).))))))..(((.(((.....(((((....)))))..))).)))....))..)))--------........-- ( -35.25)
>DroSec_CAF1 90060 106 - 1
GACAAGCGGCUGGCACUUAAUUUAGCAGAUUUUCAUAAAAGUGCCCAGCCAAGCAGCCAAAACUUGCCUAUCGAGGCAUGUGGCUGCAGGUGCAAGUC--------CCCAUCAC--
(((..(((((((((((((....................))))).))))))..(((((((.....(((((....)))))..)))))))....))..)))--------........-- ( -41.85)
>DroSim_CAF1 65912 106 - 1
GACAAGCGGCUGGCACUUAAUUUAGCAGAUUUACAUAAAAGUGCCCAGCCAAGCAGCCAAAACUUGCCUAUCGAGGCAUGUGGCUGCAGGUGCAAGUC--------CCCAUCAC--
(((..(((((((((((((....................))))).))))))..(((((((.....(((((....)))))..)))))))....))..)))--------........-- ( -41.85)
>DroEre_CAF1 65047 106 - 1
GACAAGCGACUGGCACUUAAUUUAGCAGAUUUACAUAAAAGUGCCCGGCCAAGCAGCCAAAACUUGCCUAUCGAGCCACAUGGCUGCAGGUGCAAGUC--------CCCAUCAC--
(((..((..(.(((((((....................))))))).)(((..(((((((...((((.....)))).....))))))).)))))..)))--------........-- ( -29.35)
>DroYak_CAF1 94340 106 - 1
GACAAGCGACUGGCACUUAAUUUAGCAGAUUUACAUAAAAGUGCCCAGCCAAGCAGCCAAAACUUGCCUAUCGAGGCGUGUGGCUGCAGGUGCAAGUC--------CCCAUCAC--
(((..((....(((((((....................)))))))..(((..(((((((.....(((((....)))))..))))))).)))))..)))--------........-- ( -34.85)
>DroAna_CAF1 58959 116 - 1
GACAAGCGACUGGCACUUAAUUUAGCAGAUUUACAUAAAAGUGCCCAGUCGAGCAGCCAAAACUUGCCUAUCAGGGCAUAUGGCUGCAGGUGCAAGGACCGCUUCCUCCAUCAAAA
......((((((((((((....................))))).))))))).(((((((.....(((((....)))))..))))))).((((..((((.....)))).)))).... ( -41.95)
>consensus
GACAAGCGACUGGCACUUAAUUUAGCAGAUUUACAUAAAAGUGCCCAGCCAAGCAGCCAAAACUUGCCUAUCGAGGCAUGUGGCUGCAGGUGCAAGUC________CCCAUCAC__
(((..(((((((((((((....................))))).))))))..(((((((.....(((((....)))))..)))))))....))..))).................. (-34.43 = -34.85 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:15 2006