Locus 8519

Sequence ID 3L_DroMel_CAF1
Location 22,307,842 – 22,308,047
Length 205
Max. P 0.825433
window13950 window13951

overview

Window 0

Location 22,307,842 – 22,307,943
Length 101
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 80.44
Mean single sequence MFE -28.08
Consensus MFE -21.20
Energy contribution -21.64
Covariance contribution 0.44
Combinations/Pair 1.21
Mean z-score -1.70
Structure conservation index 0.75
SVM decision value 0.56
SVM RNA-class probability 0.780553
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22307842 101 - 23771897
-------------------UGGGACUGGGACCAGGUCCUAGGCCUUAUUCCUUUGAUCUUUUGUCUUUUGCAAUUACAAUUAUGUUUUAUUUGCUCUAGUUGACACAAGAGACAAAAGUU
-------------------.(((.(((((((...))))))).)))............((((((((((((((((((((((.((.....)).)))...))))))...))))))))))))).. ( -29.40)
>DroSec_CAF1 66474 99 - 1
-------------------UGGGACUGGGACCAGGUCCUAGGCCAUAUUCCUUUGAUCUUUUGUCUUUUGCAAUUACAAUUAUGUUUUAUUUGCUCUAGUUGACACAAGAGGCGAAGA--
-------------------(((..(((((((...))))))).))).....(((((.((((.((((....((((..(((....))).....)))).......)))).))))..))))).-- ( -27.40)
>DroSim_CAF1 48525 101 - 1
-------------------UGGGACUGGGACCAGGUCCUAGGCCAUAUUCCUUUGAUCUUUUGUCUUUUGCAAUUACAAUUAUGUUUUAUUUGCUCUAGUUGACACAAGAGACGAAAGUU
-------------------(((..(((((((...))))))).)))............((((((((((((((((((((((.((.....)).)))...))))))...))))))))))))).. ( -29.00)
>DroEre_CAF1 64932 118 - 1
UUGGGAUUGGGAUGGGGAUUGGGCUUGGGACCAGGUCCUAGGACAUUUUCCUUUGAUCUUCUGUCUCUCGCAACUACAAUUA--UUUUAUUUGCUCUAGUUGACACAAGAAACGAAAGUU
(((.....(((((((((((((((((((....))))))).((((.....))))..))))))).)))))..((((((((((...--......)))...)))))).).)))..(((....))) ( -30.90)
>DroYak_CAF1 42176 114 - 1
UUGGGUUUGCGUU------UGGUAUUGGGGCCAGGGCCUAGAAAAUUUUUCUUUGAUCUUUUGUCUUUUGCAAUUACAAUGAGGUUUUAUUUGCUCUAGUUGACACAAGAGAGGAAGGUU
(((((((.....(------((((......))))))))))))..((((((((((...((((.((((....((((.((.(((...))).)).)))).......)))).)))))))))))))) ( -23.70)
>consensus
___________________UGGGACUGGGACCAGGUCCUAGGCCAUAUUCCUUUGAUCUUUUGUCUUUUGCAAUUACAAUUAUGUUUUAUUUGCUCUAGUUGACACAAGAGACGAAAGUU
.....................((.(((((((...))))))).)).............((((((((((((((((((((((.((.....)).)))...))))))...))))))))))))).. (-21.20 = -21.64 +   0.44)

alignment

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secondary structure

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dotplot

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Window 1

Location 22,307,943 – 22,308,047
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.26
Mean single sequence MFE -31.76
Consensus MFE -23.94
Energy contribution -24.82
Covariance contribution 0.88
Combinations/Pair 1.07
Mean z-score -1.94
Structure conservation index 0.75
SVM decision value 0.70
SVM RNA-class probability 0.825433
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22307943 104 + 23771897
-----------AACCCAAUCACAAUCUGAGUCGCAGUCGAA-----GUCCAGUUCAGACACAUGUCUGUAUUCCCAGACUGGCAAAAGUUGCCCAUCAAGUGGAGUGCUGCGACGGAAUA
-----------...((..(((.....)))((((((((...(-----.((((.(((((((....)))))........((..((((.....))))..)))).)))).))))))))))).... ( -33.10)
>DroSec_CAF1 66573 104 + 1
-----------AACCCAAUCGCAAUCUCAGUCGCAGUCGCA-----GUCCAGUCCAGACACUUGUCUGUAUUCCCAGACUGGAAAAAGUUGCCCAUCAAGUGGAGUGCUGCGACGGAAUA
-----------...............((.(((((((.(((.-----.((((((((((((....)))))........))))))).........((((...)))).)))))))))).))... ( -35.10)
>DroSim_CAF1 48626 104 + 1
-----------AACCCAAUCGCAAUCUCAUUCGUAGUCGCA-----GUCCAGUCCAGACACUUGUCUGUAUUCCCAGACUGGCAAAAGUUGCCCAUCAAGUGGAGUGCUGCGACGGAAUA
-----------.................((((...((((((-----(((((((((((((....)))))........))))))........((((((...)))).)))))))))).)))). ( -31.50)
>DroEre_CAF1 65050 120 + 1
ACACAAGCCCAAAAGCAAUCGCAAUCUCAGUCGCAGUCGCAGUCCAGUCCAGUCCAGACACUUGUCUGUAUUCCCAGACUGGCAAAAGUUGCCCAUCAAGUCGAGUGCUGCGACGGAAUA
........((....((....)).......(((((((.(((.(.((((((.(((.(((((....))))).)))....)))))))............((.....)))))))))))))).... ( -35.00)
>DroYak_CAF1 42290 102 + 1
ACGCAAACC------CAAUCGCAAUCUUAGUCGCA-----------GCCCAGUCCAGACACUUGUCUGUAUUCCCAGACUGGCAAAAGUUGCCCAUCAAGUCGAGUGCUGC-ACGGAAUA
..((.....------.....)).......((.(((-----------((.(....(((((....)))))........((((((((.....)))).....))))..).)))))-))...... ( -24.10)
>consensus
___________AACCCAAUCGCAAUCUCAGUCGCAGUCGCA_____GUCCAGUCCAGACACUUGUCUGUAUUCCCAGACUGGCAAAAGUUGCCCAUCAAGUGGAGUGCUGCGACGGAAUA
........................(((..((((((((...........(((((((((((....)))))........))))))........((((((...)))).)))))))))))))... (-23.94 = -24.82 +   0.88)

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 13:17:49 2006