Locus 7680

Sequence ID 3R_DroMel_CAF1
Location 20,596,151 – 20,596,245
Length 94
Max. P 0.997359
window12389 window12390

overview

Window 9

Location 20,596,151 – 20,596,245
Length 94
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 73.85
Mean single sequence MFE -41.15
Consensus MFE -25.66
Energy contribution -25.75
Covariance contribution 0.09
Combinations/Pair 1.19
Mean z-score -3.12
Structure conservation index 0.62
SVM decision value 2.84
SVM RNA-class probability 0.997359
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20596151 94 + 27905053
UCACGAGCCCCGUGAUUUUUGGGCUG---CAAGUGAGUAGUCUGGAUACUUCCAGAUAACU------------------CUCCAGAUGCCUCCAGGUGCAGCUUAAAACGCAGGG
.......(((.(((..((((((((((---(..(.((((.(((((((....))))))).)))------------------).).....(((....))))))))))))))))).))) ( -39.20)
>DroSec_CAF1 20975 92 + 1
UCACGAGCCCCGCGAUUUUUGGGCUG---CGAGUGAGUAGUCUGGAUGCUUCCAGAUAACU--------------------CCAGGUGCCUCCAGGUGCAGCUCAAAACGCAGGG
.......(((.(((..((((((((((---(..(.((((.(((((((....))))))).)))--------------------))....(((....))))))))))))))))).))) ( -43.30)
>DroSim_CAF1 21098 92 + 1
UCACGAGCCCCGCGAUUUUUGGGCUG---CGAGCGAGUAGUCUGGAUGCUUCCAGAUAACU--------------------CCAGGUGCCUCCAGGUGCAGCUCAAAACGCAGGG
.......(((.(((..((((((((((---(..(.((((.(((((((....))))))).)))--------------------))....(((....))))))))))))))))).))) ( -43.30)
>DroEre_CAF1 20915 105 + 1
UCACGAGCCCCGCGAUUUUUGGGCUGCCGCUAGUGAGUAGUCUGGACACUUCCAGGUGCUUC----------CAAGUGCCUCCAGAGGCCUCCAGGUGCAGCUCAAAACGCAGGG
.......(((.(((..(((((((((((.(((.(..((((.((((((....))))))))))..----------).((.((((....))))))...))))))))))))))))).))) ( -44.30)
>DroYak_CAF1 21000 112 + 1
UCACGAGCCCCGCGAUUUUUGGGCUG---CGAGUGAGUAGUCCGGACACUUCCAGGUGCUUCCAGGUACUUCCAGGUGCCUCCAGACGCUUCCAGGUGCAGCUCAAAACGCAGGG
.......(((.(((..((((((((((---((.(..(((.(((.((((((((..(((((((....)))))))..)))))..))).))))))..)...))))))))))))))).))) ( -46.80)
>DroPer_CAF1 22468 71 + 1
UCACGCGCUCUGCCAGUUUUGGGCUG---CGC-------GUCUGGAGACUUCCAGGUGCU----------------------------------GCUGCAGCUCAAAAUGCAAAG
.......((.(((..(((((((((((---(((-------..((((......))))..)).----------------------------------...))))))))))))))).)) ( -30.00)
>consensus
UCACGAGCCCCGCGAUUUUUGGGCUG___CGAGUGAGUAGUCUGGAUACUUCCAGAUAACU____________________CCAGAUGCCUCCAGGUGCAGCUCAAAACGCAGGG
.......(((.(((..((((((((((.............(((((((....)))))))..............................(((....))).))))))))))))).))) (-25.66 = -25.75 +   0.09)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 20,596,151 – 20,596,245
Length 94
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 73.85
Mean single sequence MFE -38.13
Consensus MFE -24.17
Energy contribution -24.27
Covariance contribution 0.10
Combinations/Pair 1.16
Mean z-score -2.53
Structure conservation index 0.63
SVM decision value 2.46
SVM RNA-class probability 0.994231
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20596151 94 - 27905053
CCCUGCGUUUUAAGCUGCACCUGGAGGCAUCUGGAG------------------AGUUAUCUGGAAGUAUCCAGACUACUCACUUG---CAGCCCAAAAAUCACGGGGCUCGUGA
(((((.(((((..((((((.(..((....))..).(------------------(((..((((((....))))))..))))...))---))))...)))).).)))))....... ( -35.10)
>DroSec_CAF1 20975 92 - 1
CCCUGCGUUUUGAGCUGCACCUGGAGGCACCUGG--------------------AGUUAUCUGGAAGCAUCCAGACUACUCACUCG---CAGCCCAAAAAUCGCGGGGCUCGUGA
((((((((((((.(((((.((....))......(--------------------(((..((((((....))))))..))))....)---)))).)))))..)))))))....... ( -39.90)
>DroSim_CAF1 21098 92 - 1
CCCUGCGUUUUGAGCUGCACCUGGAGGCACCUGG--------------------AGUUAUCUGGAAGCAUCCAGACUACUCGCUCG---CAGCCCAAAAAUCGCGGGGCUCGUGA
((((((((((((.(((((.((....))......(--------------------(((..((((((....))))))..))))....)---)))).)))))..)))))))....... ( -39.90)
>DroEre_CAF1 20915 105 - 1
CCCUGCGUUUUGAGCUGCACCUGGAGGCCUCUGGAGGCACUUG----------GAAGCACCUGGAAGUGUCCAGACUACUCACUAGCGGCAGCCCAAAAAUCGCGGGGCUCGUGA
((((((((((((.(((((..((((((...((((((.((..(..----------(......)..)..)).))))))...))).).))..))))).)))))..)))))))....... ( -44.80)
>DroYak_CAF1 21000 112 - 1
CCCUGCGUUUUGAGCUGCACCUGGAAGCGUCUGGAGGCACCUGGAAGUACCUGGAAGCACCUGGAAGUGUCCGGACUACUCACUCG---CAGCCCAAAAAUCGCGGGGCUCGUGA
((((((((((((.(((((.....((...(((((((.((..(..(..((........))..)..)..)).)))))))...))....)---)))).)))))..)))))))....... ( -42.50)
>DroPer_CAF1 22468 71 - 1
CUUUGCAUUUUGAGCUGCAGC----------------------------------AGCACCUGGAAGUCUCCAGAC-------GCG---CAGCCCAAAACUGGCAGAGCGCGUGA
((((((.(((((.(((((...----------------------------------.((..(((((....)))))..-------)))---)))).)))))...))))))....... ( -26.60)
>consensus
CCCUGCGUUUUGAGCUGCACCUGGAGGCAUCUGG____________________AAGCACCUGGAAGUAUCCAGACUACUCACUCG___CAGCCCAAAAAUCGCGGGGCUCGUGA
((((((((((((.((((...((((......))))..........................(((((....)))))...............)))).)))))..)))))))....... (-24.17 = -24.27 +   0.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:51 2006