Locus 1361

Sequence ID 2L_DroMel_CAF1
Location 3,606,249 – 3,606,377
Length 128
Max. P 0.943365
window2224 window2225

overview

Window 4

Location 3,606,249 – 3,606,353
Length 104
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 74.88
Mean single sequence MFE -27.25
Consensus MFE -19.58
Energy contribution -18.70
Covariance contribution -0.88
Combinations/Pair 1.30
Mean z-score -0.88
Structure conservation index 0.72
SVM decision value 0.14
SVM RNA-class probability 0.603202
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3606249 104 + 22407834
CAAGUUGUUCUGAGCCAGUUUUGAACUUGAACCCACCUUGUUCUCUGCUUAAGUUGAGCUCGUCAUCCACGGUUAUGUUGCUGAUGGGUGAGGCCGAUGUGGAA
((((((...(((...))).....))))))...((((.(((..(...((((.....))))...(((((((((((......)))).))))))))..))).)))).. ( -29.40)
>DroPse_CAF1 81398 89 + 1
---------------CUGUUUUUUGCGGAUAAUUACCUUGUUCUCUGCUGAUAUUGAGCUCGUCGUCGACGGUUAUGUUGCUGAUCGGCGAGGCGGAAGUGGAA
---------------(..(((((.(((((.(((......))).))))).........(((..(((((((((((......)))).)))))))))))))))..).. ( -26.30)
>DroGri_CAF1 89123 84 + 1
--------------------UUUAGCUGGUGCUUACCUUGUUCUCUGCUUAUGUUAAGCUCGUCGUCCACGGUUAUGUUGCUGAUGGGCGAGGCGGAAGUAGAA
--------------------...(((.(((....)))..))).(((((((.......(((..(((((((((((......)))).))))))))))..))))))). ( -25.50)
>DroEre_CAF1 75449 104 + 1
CAACUCGUUCUGAGCCAGUUUUGGACUUGAACCCACCUUGUUCUCUGCUUAAGUUGAGCUCGUCAUCCACGGUUAUGUUGCUGAUGGGCGAGGCGGAUGUGGAG
...(((((((.(((((......)).)))))))((.((((....((.((....)).))((((((((.(.(((....))).).)))))))))))).)).....))) ( -29.90)
>DroMoj_CAF1 96774 80 + 1
----------------------U--CUCGUGCCUACCUUGUUCUCUGCUUAUGUUAAGCUCGUCGUCCACGGUUAUGUUGCUGAUGGGCGAAGCUGAAGUGGAA
----------------------.--..................((..(((......((((..(((((((((((......)))).))))))))))).)))..)). ( -24.10)
>DroPer_CAF1 81677 89 + 1
---------------CUGUUUUUAGCGGAUAAUUACCUUGUUCUCUGCUGAUAUUGAGCUCGUCGUCGACGGUUAUGUUGCUGAUCGGCGAGGCGGAAGUGGAA
---------------(..(((((((((((.(((......))).))))))).......(((..(((((((((((......)))).)))))))))).))))..).. ( -28.30)
>consensus
_______________C_GUUUUUAGCUGGUACCUACCUUGUUCUCUGCUUAUGUUGAGCUCGUCGUCCACGGUUAUGUUGCUGAUGGGCGAGGCGGAAGUGGAA
................................((((..........((((.....)))).(.(((((((((((......)))).))))))).).....)))).. (-19.58 = -18.70 +  -0.88)

alignment

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secondary structure

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dotplot

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Window 5

Location 3,606,276 – 3,606,377
Length 101
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 75.44
Mean single sequence MFE -29.07
Consensus MFE -23.00
Energy contribution -22.20
Covariance contribution -0.80
Combinations/Pair 1.22
Mean z-score -1.41
Structure conservation index 0.79
SVM decision value 1.33
SVM RNA-class probability 0.943365
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3606276 101 + 22407834
UGAACCCACCUUGUUCUCUGCUUAAGUUGAGCUCGUCAUCCACGGUUAUGUUGCUGAUGGGUGAGGCCGAUGUGGAAGACAUUAUACU-------GUCUUUGUUGGCC
.((((.......))))...((((.....))))...(((((((((((......)))).)))))))(((((((...(((((((......)-------))))))))))))) ( -33.60)
>DroPse_CAF1 81410 94 + 1
GAUAAUUACCUUGUUCUCUGCUGAUAUUGAGCUCGUCGUCGACGGUUAUGUUGCUGAUCGGCGAGGCGGAAGUGGAAGACAUGGUAAU-------CCCCGU-------
....((((((.(((..((..((........(((..(((((((((((......)))).))))))))))...))..))..))).))))))-------......------- ( -32.50)
>DroGri_CAF1 89130 96 + 1
GGUGCUUACCUUGUUCUCUGCUUAUGUUAAGCUCGUCGUCCACGGUUAUGUUGCUGAUGGGCGAGGCGGAAGUAGAAGACAUAUUCCCUUUU---GUU---------U
(((....))).(((..(((((((.......(((..(((((((((((......)))).))))))))))..)))))))..)))...........---...---------. ( -29.40)
>DroWil_CAF1 106719 89 + 1
GAAAUUUACCUUGUUCUCUGCUCAAAUUAAGUUCGUCAUCCACUGUUAUGUUGCUGAUGGGUGAGGCCGAUGUGGAAGACAUUAUUCC---------U----------
...........(((..((..(((..........(((((.(.((......)).).)))))((.....)))).)..))..))).......---------.---------- ( -16.60)
>DroMoj_CAF1 96777 99 + 1
CGUGCCUACCUUGUUCUCUGCUUAUGUUAAGCUCGUCGUCCACGGUUAUGUUGCUGAUGGGCGAAGCUGAAGUGGAAGACAUAUUCCCUUUUUGUGUC---------U
................((..(((......((((..(((((((((((......)))).))))))))))).)))..))(((((((.........))))))---------) ( -29.80)
>DroPer_CAF1 81689 94 + 1
GAUAAUUACCUUGUUCUCUGCUGAUAUUGAGCUCGUCGUCGACGGUUAUGUUGCUGAUCGGCGAGGCGGAAGUGGAAGACAUGGUAAU-------CCCCGU-------
....((((((.(((..((..((........(((..(((((((((((......)))).))))))))))...))..))..))).))))))-------......------- ( -32.50)
>consensus
GAUACUUACCUUGUUCUCUGCUUAUAUUAAGCUCGUCGUCCACGGUUAUGUUGCUGAUGGGCGAGGCGGAAGUGGAAGACAUAAUACC_______GUC__________
...........(((..((((((........(((..(((((((((((......)))).))))))))))...))))))..)))........................... (-23.00 = -22.20 +  -0.80)

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 10:00:38 2006