Locus 6805

Sequence ID 3R_DroMel_CAF1
Location 17,977,387 – 17,977,489
Length 102
Max. P 0.608897
window11047 window11048

overview

Window 7

Location 17,977,387 – 17,977,489
Length 102
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 85.03
Mean single sequence MFE -32.00
Consensus MFE -26.13
Energy contribution -26.13
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.82
SVM decision value 0.15
SVM RNA-class probability 0.608897
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17977387 102 + 27905053
CGUUGAUGCCGCUGCUGUUGCUUUUGCCUUUGCUGUUGCAGCAGCAUCUUUUGCUCCUUGCUGGAUGCCUGGGUGGCCCGAAAGUCGAAGUUGAUUUUCCAG
.......((((((((((((((....((....))....)))))))).......(((((.....))).))...))))))..((((((((....))))))))... ( -35.50)
>DroSec_CAF1 20518 81 + 1
CGUUGCUGCCGCUGCUGUUGCU---------------------GCAUCUUUUGCUCCUUGCUGGAUGCCUGGGUGGCCCGAAAGUCGAAGUUGAUUUUCCAG
.......((((((((....)).---------------------((((((...((.....)).))))))...))))))..((((((((....))))))))... ( -26.00)
>DroSim_CAF1 21975 90 + 1
CGUUGCUGCCGCUGCUGUUGCU------------GUUGCAGCAGCAUCUUUUGCUCCUUGCUGGAUGCCUGGGUGGCCCGAAAGUCGAAGUUGAUUUUCCAG
....((..(((.(((((((((.------------...))))))))).)....(((((.....))).))...))..))..((((((((....))))))))... ( -34.50)
>consensus
CGUUGCUGCCGCUGCUGUUGCU____________GUUGCAGCAGCAUCUUUUGCUCCUUGCUGGAUGCCUGGGUGGCCCGAAAGUCGAAGUUGAUUUUCCAG
.......((((((((....))......................((((((...((.....)).))))))...))))))..((((((((....))))))))... (-26.13 = -26.13 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 17,977,387 – 17,977,489
Length 102
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 85.03
Mean single sequence MFE -26.23
Consensus MFE -19.12
Energy contribution -21.12
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -1.74
Structure conservation index 0.73
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17977387 102 - 27905053
CUGGAAAAUCAACUUCGACUUUCGGGCCACCCAGGCAUCCAGCAAGGAGCAAAAGAUGCUGCUGCAACAGCAAAGGCAAAAGCAACAGCAGCGGCAUCAACG
(((((.........(((.....)))(((.....))).)))))............(((((((((((..(......)((....))....))))))))))).... ( -33.10)
>DroSec_CAF1 20518 81 - 1
CUGGAAAAUCAACUUCGACUUUCGGGCCACCCAGGCAUCCAGCAAGGAGCAAAAGAUGC---------------------AGCAACAGCAGCGGCAGCAACG
((((((..((......)).))))))(((......((.(((.....))))).......((---------------------.((....)).)))))....... ( -17.30)
>DroSim_CAF1 21975 90 - 1
CUGGAAAAUCAACUUCGACUUUCGGGCCACCCAGGCAUCCAGCAAGGAGCAAAAGAUGCUGCUGCAAC------------AGCAACAGCAGCGGCAGCAACG
(((((.........(((.....)))(((.....))).)))))............(.(((((((((...------------.((....)).))))))))).). ( -28.30)
>consensus
CUGGAAAAUCAACUUCGACUUUCGGGCCACCCAGGCAUCCAGCAAGGAGCAAAAGAUGCUGCUGCAAC____________AGCAACAGCAGCGGCAGCAACG
(((((.........(((.....)))(((.....))).)))))............(.(((((((((......................))))))))).).... (-19.12 = -21.12 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:24 2006