Locus 6688

Sequence ID 3R_DroMel_CAF1
Location 17,598,325 – 17,598,472
Length 147
Max. P 0.999936
window10874 window10875

overview

Window 4

Location 17,598,325 – 17,598,432
Length 107
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 85.55
Mean single sequence MFE -15.53
Consensus MFE -13.00
Energy contribution -13.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.84
SVM decision value 0.25
SVM RNA-class probability 0.652765
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17598325 107 + 27905053
------UACACGAUUAUUA-UAUGUAACAUAUAACAGCUACAAAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUGGCUGUCGUACA
------...((((...(((-((((...)))))))(((((((..........................((.....))...(((......))).........)))))))))))... ( -17.60)
>DroVir_CAF1 822 101 + 1
AAGUAUUAUACGAUUAU----A----U-----AACAGCUACAAAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUGGCUGUCGUACA
................(----(----.-----.((((((((..........................((.....))...(((......))).........))))))))..)).. ( -14.80)
>DroGri_CAF1 1135 110 + 1
AAGUACUAUACGACUAU----AUAUAUAUUAAAACAGCUACAAAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUGGCUGUCGUACA
..((((((((......)----))).........((((((((..........................((.....))...(((......))).........)))))))).)))). ( -16.10)
>DroEre_CAF1 767 107 + 1
------UACACGAUUAUC-AUAUGUAACAUAUAACAGCUACAAAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUGGCUGUCGUACA
------...((((.....-(((((...)))))..(((((((..........................((.....))...(((......))).........)))))))))))... ( -15.60)
>DroAna_CAF1 698 100 + 1
------AACGAGUUU--------ACAAUGUUUAACAGCUACAAAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUGGCUGUCGUACA
------.........--------....(((...((((((((..........................((.....))...(((......))).........))))))))...))) ( -14.50)
>DroMoj_CAF1 805 105 + 1
AAGUAAUAUACGAUUAU----GUGUUU-----AACAGCUACAAAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUGGCUGUCGUACA
..(((((.....)))))----.(((..-----.((((((((..........................((.....))...(((......))).........))))))))...))) ( -14.60)
>consensus
______UACACGAUUAU____AUGUAA__UAUAACAGCUACAAAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUGGCUGUCGUACA
.................................((((((((..........................((.....))...(((......))).........))))))))...... (-13.00 = -13.00 +   0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,598,352 – 17,598,472
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 98.44
Mean single sequence MFE -25.75
Consensus MFE -24.57
Energy contribution -24.73
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -4.96
Structure conservation index 0.95
SVM decision value 4.67
SVM RNA-class probability 0.999936
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17598352 120 + 27905053
CAGCUACAAAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUGGCUGUCGUACAAAAAAUGAUAAAAAACGAGAGUAAGACAAAAACUAAAUCC
..................................((((((((((((((((((.(((((.........))).))))))))......(......)..))))))))))))............. ( -26.00)
>DroVir_CAF1 843 120 + 1
CAGCUACAAAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUGGCUGUCGUACAAAAAAUUAUAAAAAACGAGAGUAAGACAAAAACUAAAUCC
..................................((((((((((((((((((.(((((.........))).))))))))......((....))..))))))))))))............. ( -25.80)
>DroGri_CAF1 1165 120 + 1
CAGCUACAAAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUGGCUGUCGUACAAAAAAUGAUAAAAAACGAGAGUAAGACAAAAACUAAAUCU
..................................((((((((((((((((((.(((((.........))).))))))))......(......)..))))))))))))............. ( -26.00)
>DroWil_CAF1 18271 120 + 1
CAGCUACAGAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUUGCUGUCGUACAAAAAAUUAUAAAAAACGAGAGUAAGACAAAAACUAAGUCC
..................................((((((((((((((((((.((.(((........))).))))))))......((....))..))))))))))))............. ( -24.70)
>DroAna_CAF1 718 120 + 1
CAGCUACAAAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUGGCUGUCGUACAAAAAAUGAUAAAAAACGAGAGUAAGACAAAAACUAAAUCC
..................................((((((((((((((((((.(((((.........))).))))))))......(......)..))))))))))))............. ( -26.00)
>DroMoj_CAF1 830 120 + 1
CAGCUACAAAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUGGCUGUCGUACAAAAAAUGAUAAAAAACGAGAGUAAGACAAAAACUAAAUCC
..................................((((((((((((((((((.(((((.........))).))))))))......(......)..))))))))))))............. ( -26.00)
>consensus
CAGCUACAAAAACUACAAAACUUCCUUACUACCAGUCUUACUUUCGGUACGAACACCAAACACAAAGUGGCUGUCGUACAAAAAAUGAUAAAAAACGAGAGUAAGACAAAAACUAAAUCC
..................................((((((((((((((((((.(((((.........))).))))))))......(......)..))))))))))))............. (-24.57 = -24.73 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:38 2006