Locus 10193

Sequence ID 3R_DroMel_CAF1
Location 27,355,983 – 27,356,124
Length 141
Max. P 0.717979
window16230 window16231

overview

Window 0

Location 27,355,983 – 27,356,090
Length 107
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 85.50
Mean single sequence MFE -25.84
Consensus MFE -20.51
Energy contribution -21.63
Covariance contribution 1.13
Combinations/Pair 1.08
Mean z-score -2.19
Structure conservation index 0.79
SVM decision value 0.39
SVM RNA-class probability 0.717979
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27355983 107 - 27905053
UCUAUUCGGCAGAUGCCAUAAAUAGCCGUCGAAAUUGGGUUUAUAGUGCAGAAACUCAAUGGUCCGUCGCUAUUUAU------AUAAGCCAACUGCAAACAAAAGACUCGAG-A
....((((((((..((.(((((((((.(.((..(((((((((.........)))))))))....)).))))))))))------....))...))))...(....)...))))-. ( -23.80)
>DroSec_CAF1 101415 107 - 1
UCUAUUCGGCAGAUGCCAUAAAUAGCCGUCGAAAUUGGGUUUAUAGUGCAGAAACUCAAUGGUCCGUGGCUAUUUAU------AUAAGCCAACUGCAAACAAAAGACUCGAG-A
....((((((((..((.(((((((((((..((.(((((((((.........)))))))))..))..)))))))))))------....))...))))...(....)...))))-. ( -29.10)
>DroSim_CAF1 65612 107 - 1
UCUAUUCGGCAGAUGCCAUAAAUAGCCGUCGAAAUUGGGUUUAUAGUGCAGAAACUCAAUGGUCCGUGGCUAUUUAU------AUAAGCCAACUGCAAACAAAAGACUCGAG-A
....((((((((..((.(((((((((((..((.(((((((((.........)))))))))..))..)))))))))))------....))...))))...(....)...))))-. ( -29.10)
>DroEre_CAF1 65777 109 - 1
----UUCGGUAGAUGCCAUAAAUAGCCAUCGAAAUUGGGUUUAUAGUGCAAAAACUCAAUGGUCCGUGGCUAUUUAUACUCGUAUAAGCCAACUGCAAACAAAAGACUCAAG-A
----...(((..((((.((((((((((((.((.(((((((((.........)))))))))..)).))))))))))))....))))..)))......................-. ( -30.80)
>DroYak_CAF1 58700 103 - 1
----UUCGGCAGAUGCCAUAAAUAGCCGUCGAAAUUGGGUUUAUAGUGCAGAAACUCAAUGGUCCGUGGCUAUUUAU------AUAAGCCAACUGCAAACAAAAGACUCAAG-A
----....((((..((.(((((((((((..((.(((((((((.........)))))))))..))..)))))))))))------....))...))))................-. ( -28.80)
>DroAna_CAF1 69643 88 - 1
--------------------AAAAGCCAACAAAAAUAGGUUUAUAGUGCACAAACUCAAUGGUCCAUGGCUAUUUAU------AUCCGCCAACUACAAACAAAAGACUCAGGCA
--------------------....(((...........((((.((((((........((((((.....))))))...------....))..)))).))))..........))). ( -13.46)
>consensus
____UUCGGCAGAUGCCAUAAAUAGCCGUCGAAAUUGGGUUUAUAGUGCAGAAACUCAAUGGUCCGUGGCUAUUUAU______AUAAGCCAACUGCAAACAAAAGACUCAAG_A
.......(((....)))(((((((((((..((.(((((((((.........)))))))))..))..)))))))))))..................................... (-20.51 = -21.63 +   1.13)

alignment

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secondary structure

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dotplot

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Window 1

Location 27,356,014 – 27,356,124
Length 110
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 85.24
Mean single sequence MFE -29.58
Consensus MFE -21.74
Energy contribution -22.70
Covariance contribution 0.96
Combinations/Pair 1.07
Mean z-score -2.21
Structure conservation index 0.73
SVM decision value 0.04
SVM RNA-class probability 0.553597
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27356014 110 - 27905053
UGGCUAAUUAGGCGAGUA------UAUCCAUUAAGGCUAUUCUAUUCGGCAGAUGCCAUAAAUAGCCGUCGAAAUUGGGUUUAUAGUGCAGAAACUCAAUGGUCCGUCGCUAUUUA
((((..(((.(.((((((------((.((.....)).))...)))))).).)))))))((((((((.(.((..(((((((((.........)))))))))....)).))))))))) ( -28.10)
>DroSec_CAF1 101446 110 - 1
UGGCUAAUUAGGCGAGUA------UAUCCAUUAAGGCUAUUCUAUUCGGCAGAUGCCAUAAAUAGCCGUCGAAAUUGGGUUUAUAGUGCAGAAACUCAAUGGUCCGUGGCUAUUUA
((((..(((.(.((((((------((.((.....)).))...)))))).).)))))))((((((((((..((.(((((((((.........)))))))))..))..)))))))))) ( -33.40)
>DroSim_CAF1 65643 110 - 1
UGGCUAAUUAGGCGAGUA------UAUCCAUUAAGGCUAUUCUAUUCGGCAGAUGCCAUAAAUAGCCGUCGAAAUUGGGUUUAUAGUGCAGAAACUCAAUGGUCCGUGGCUAUUUA
((((..(((.(.((((((------((.((.....)).))...)))))).).)))))))((((((((((..((.(((((((((.........)))))))))..))..)))))))))) ( -33.40)
>DroEre_CAF1 65814 111 - 1
CGGCUAAUUAGGCGAAUAUACUCGUAUCCAUUAAGGCUA-----UUCGGUAGAUGCCAUAAAUAGCCAUCGAAAUUGGGUUUAUAGUGCAAAAACUCAAUGGUCCGUGGCUAUUUA
.(((..(((.(.((((((..((...........))..))-----)))).).)))))).(((((((((((.((.(((((((((.........)))))))))..)).))))))))))) ( -32.90)
>DroYak_CAF1 58731 105 - 1
CGGCUAAUUAGGCGAAUU------UAUCCAUUAAGGCUA-----UUCGGCAGAUGCCAUAAAUAGCCGUCGAAAUUGGGUUUAUAGUGCAGAAACUCAAUGGUCCGUGGCUAUUUA
.(((..(((.(.(((((.------...((.....))..)-----)))).).)))))).((((((((((..((.(((((((((.........)))))))))..))..)))))))))) ( -32.90)
>DroAna_CAF1 69675 88 - 1
UGGCUAAUUAGGCGAA--------UAUCCAUUAAGACUAU--------------------AAAAGCCAACAAAAAUAGGUUUAUAGUGCACAAACUCAAUGGUCCAUGGCUAUUUA
..(((.....)))(((--------((.((((...((((((--------------------..(((((..........)))))..(((......)))..)))))).)))).))))). ( -16.80)
>consensus
UGGCUAAUUAGGCGAAUA______UAUCCAUUAAGGCUAU____UUCGGCAGAUGCCAUAAAUAGCCGUCGAAAUUGGGUUUAUAGUGCAGAAACUCAAUGGUCCGUGGCUAUUUA
..(((.....)))..................................(((....))).((((((((((..((.(((((((((.........)))))))))..))..)))))))))) (-21.74 = -22.70 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:51:05 2006