Locus 4165

Sequence ID 2R_DroMel_CAF1
Location 13,695,014 – 13,695,124
Length 110
Max. P 1.000000
window6699 window6700

overview

Window 9

Location 13,695,014 – 13,695,124
Length 110
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 66.87
Mean single sequence MFE -37.87
Consensus MFE -24.55
Energy contribution -28.00
Covariance contribution 3.45
Combinations/Pair 1.03
Mean z-score -3.84
Structure conservation index 0.65
SVM decision value 7.62
SVM RNA-class probability 1.000000
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13695014 110 + 20766785
AGGUGGAAAAACAUCGAUGUGUUGUGUUCUUUAAAACAUCGAU-GUUUCUCCACCU-CUAGAUAGCAUUGUCGCGAUAUCGAAAGCACACGGUGUGCUUUCGUAAAUAGCGC
(((((((.((((((((((((.(((.......))).))))))))-)))).)))))))-...((((....))))((.....(((((((((.....)))))))))......)).. ( -46.10)
>DroSec_CAF1 6380 111 + 1
AGGUGGAGAAACAUCGAUGGGUUGUGUUCUUUAAAACAUCGAUGGCAUCUCCACCU-CUAGAUGGCACUGUCGCGGUAUCGAAAGCGCACGGUGUGCUUUCGCAAAUAGCGC
(((((((((..((((((((..(((.......)))..))))))))...)))))))))-...(((......)))(((.((((((((((((.....)))))))))...))).))) ( -48.40)
>DroSim_CAF1 6383 112 + 1
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAUCUCCACCUCCUAGAUUGCACUGUCGCGGUAUCGAAAGCGCACGGUGUGCUUUCGCAAAUAGCGC
............................................................(((......)))(((.((((((((((((.....)))))))))...))).))) ( -19.10)
>consensus
AGGUGGA_AAACAUCGAUG_GUUGUGUUCUUUAAAACAUCGAU_G_AUCUCCACCU_CUAGAUAGCACUGUCGCGGUAUCGAAAGCGCACGGUGUGCUUUCGCAAAUAGCGC
.((((((....(((((((((.(((.......))).))))))))).....)))))).....(((......)))(((.((((((((((((.....)))))))))...))).))) (-24.55 = -28.00 +   3.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,695,014 – 13,695,124
Length 110
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 66.87
Mean single sequence MFE -36.99
Consensus MFE -21.13
Energy contribution -24.33
Covariance contribution 3.20
Combinations/Pair 1.06
Mean z-score -4.12
Structure conservation index 0.57
SVM decision value 6.49
SVM RNA-class probability 0.999998
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13695014 110 - 20766785
GCGCUAUUUACGAAAGCACACCGUGUGCUUUCGAUAUCGCGACAAUGCUAUCUAG-AGGUGGAGAAAC-AUCGAUGUUUUAAAGAACACAACACAUCGAUGUUUUUCCACCU
(((.(((...(((((((((.....)))))))))))).)))...............-((((((((((((-((((((((...............)))))))))))))))))))) ( -47.86)
>DroSec_CAF1 6380 111 - 1
GCGCUAUUUGCGAAAGCACACCGUGCGCUUUCGAUACCGCGACAGUGCCAUCUAG-AGGUGGAGAUGCCAUCGAUGUUUUAAAGAACACAACCCAUCGAUGUUUCUCCACCU
(((((..((((((((((.(.....).))))))(....))))).))))).......-(((((((((...((((((((..((.........))..))))))))..))))))))) ( -41.50)
>DroSim_CAF1 6383 112 - 1
GCGCUAUUUGCGAAAGCACACCGUGCGCUUUCGAUACCGCGACAGUGCAAUCUAGGAGGUGGAGAUNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
.((((...(((....)))..((.((((((.(((......))).)))))).....)).))))................................................... ( -21.60)
>consensus
GCGCUAUUUGCGAAAGCACACCGUGCGCUUUCGAUACCGCGACAGUGCAAUCUAG_AGGUGGAGAU_C_AUCGAUGUUUUAAAGAACACAAC_CAUCGAUGUUU_UCCACCU
(((.(((...(((((((.(.....).)))))))))).))).................((((((((.((.(((((((.................))))))))).)))))))). (-21.13 = -24.33 +   3.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:20 2006