Locus 2190

Sequence ID 3L_DroMel_CAF1
Location 5,998,550 – 5,998,650
Length 100
Max. P 0.644465
window3393 window3394

overview

Window 3

Location 5,998,550 – 5,998,650
Length 100
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 75.31
Mean single sequence MFE -31.05
Consensus MFE -17.25
Energy contribution -16.83
Covariance contribution -0.41
Combinations/Pair 1.16
Mean z-score -1.57
Structure conservation index 0.56
SVM decision value 0.17
SVM RNA-class probability 0.614792
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5998550 100 + 23771897
-CU----AUAUCUAUGAUUUCUUUCUCUGUAGGUCAAACGCUUGACAAUGGGCUUGCUGCGCCAAAACGAGGAGUCACGCCCAUUGGUGGGCGACAUGACUCCUU
-((----(((.....((......))..)))))(((((....)))))..(((((.....)).)))....(((((((((((((((....))))))...))))))))) ( -34.50)
>DroPse_CAF1 65782 87 + 1
----------------AUUUCU--GUUCACAGGUCAAACGCUUAACUAUGGGUCUGCUGCGCCACAACGAGGAGUCCCGCCCACUGGUGGGCAACAUGACGCCCU
----------------....((--(....)))((((.............(((.((.((.((......)))).)).)))(((((....)))))....))))..... ( -27.20)
>DroEre_CAF1 54075 105 + 1
CCUAAAGAAAUACAUGAUUUCUUUAUCUGCAGGUCAAACGCUUGACAAUGGGCUUGCUGCGCCAAAACGAGGAGUCACGCCCACUGGUGGGCGACAUGACCCCUU
..(((((((((.....))))))))).......(((((....)))))..(((((.....)).)))....((((.((((((((((....))))))...)))).)))) ( -34.80)
>DroYak_CAF1 57406 105 + 1
CCUAAAGAAAUAUAUUAUUUCUUUCUGUGUAGGUCAAGCGCUUGACAAUGGGCUUGCUGCGCCAGAACGAGGAGUCACGCCCACUGGUGGGCGACAUGACCCCCU
....((((((((...))))))))(((((((((..(((((.(........).)))))))))).))))....((.((((((((((....))))))...)))).)).. ( -37.30)
>DroMoj_CAF1 59824 102 + 1
--A-AAGCCAUUCUCAACCACUUUAUUCACAGGUUAAGCGCUUGACCAUGGGUCUGUUGCGCCACAAUGAGGAGUCACGCCCACUGGUGGCAAACGUAACGCCCC
--.-...........................((((((....))))))..((((..((((((((((...(.((.(.....))).)..)))))....))))))))). ( -25.30)
>DroPer_CAF1 68692 87 + 1
----------------AUUUCU--GUUCACAGGUCAAACGCUUAACUAUGGGUCUGCUGCGCCACAACGAGGAGUCCCGCCCACUGGUGGGCAACAUGACGCCCU
----------------....((--(....)))((((.............(((.((.((.((......)))).)).)))(((((....)))))....))))..... ( -27.20)
>consensus
__U____A_AU__AU_AUUUCUUUAUUCACAGGUCAAACGCUUGACAAUGGGCCUGCUGCGCCACAACGAGGAGUCACGCCCACUGGUGGGCAACAUGACGCCCU
................................((((.((.(((.....(((((.....)).))).....))).))...(((((....)))))....))))..... (-17.25 = -16.83 +  -0.41)

alignment

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secondary structure

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dotplot

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Window 4

Location 5,998,550 – 5,998,650
Length 100
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 75.31
Mean single sequence MFE -33.07
Consensus MFE -19.40
Energy contribution -19.18
Covariance contribution -0.22
Combinations/Pair 1.32
Mean z-score -1.48
Structure conservation index 0.59
SVM decision value 0.23
SVM RNA-class probability 0.644465
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5998550 100 - 23771897
AAGGAGUCAUGUCGCCCACCAAUGGGCGUGACUCCUCGUUUUGGCGCAGCAAGCCCAUUGUCAAGCGUUUGACCUACAGAGAAAGAAAUCAUAGAUAU----AG-
.((((((((...((((((....)))))))))))))).(((..(((((.((((.....))))...))))).))).........................----..- ( -30.10)
>DroPse_CAF1 65782 87 - 1
AGGGCGUCAUGUUGCCCACCAGUGGGCGGGACUCCUCGUUGUGGCGCAGCAGACCCAUAGUUAAGCGUUUGACCUGUGAAC--AGAAAU----------------
..((.(((.((((((((((.....((((((....)))))))))).)))))))))))...(((((....)))))(((....)--))....---------------- ( -29.60)
>DroEre_CAF1 54075 105 - 1
AAGGGGUCAUGUCGCCCACCAGUGGGCGUGACUCCUCGUUUUGGCGCAGCAAGCCCAUUGUCAAGCGUUUGACCUGCAGAUAAAGAAAUCAUGUAUUUCUUUAGG
.((((((((...((((((....)))))))))))))).(((..(((((.((((.....))))...))))).))).......(((((((((.....))))))))).. ( -36.10)
>DroYak_CAF1 57406 105 - 1
AGGGGGUCAUGUCGCCCACCAGUGGGCGUGACUCCUCGUUCUGGCGCAGCAAGCCCAUUGUCAAGCGCUUGACCUACACAGAAAGAAAUAAUAUAUUUCUUUAGG
.((((((((...((((((....)))))))))))))).(((..(((((.((((.....))))...))))).)))........(((((((((...)))))))))... ( -37.90)
>DroMoj_CAF1 59824 102 - 1
GGGGCGUUACGUUUGCCACCAGUGGGCGUGACUCCUCAUUGUGGCGCAACAGACCCAUGGUCAAGCGCUUAACCUGUGAAUAAAGUGGUUGAGAAUGGCUU-U--
((((.((((((((..(.....)..)))))))).))))..(((......)))((((...))))((((.(((((((............)))))))....))))-.-- ( -35.10)
>DroPer_CAF1 68692 87 - 1
AGGGCGUCAUGUUGCCCACCAGUGGGCGGGACUCCUCGUUGUGGCGCAGCAGACCCAUAGUUAAGCGUUUGACCUGUGAAC--AGAAAU----------------
..((.(((.((((((((((.....((((((....)))))))))).)))))))))))...(((((....)))))(((....)--))....---------------- ( -29.60)
>consensus
AGGGCGUCAUGUCGCCCACCAGUGGGCGUGACUCCUCGUUGUGGCGCAGCAAACCCAUUGUCAAGCGUUUGACCUGCAAACAAAGAAAU_AU__AU_U____A__
.(((.(((....((((((....)))))).))).))).........(((((((((.(........).)))))..))))............................ (-19.40 = -19.18 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:25 2006