Locus 430

Sequence ID 3L_DroMel_CAF1
Location 1,256,860 – 1,256,980
Length 120
Max. P 0.945502
window626 window627

overview

Window 6

Location 1,256,860 – 1,256,980
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 79.25
Mean single sequence MFE -37.90
Consensus MFE -29.00
Energy contribution -29.33
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.98
Structure conservation index 0.77
SVM decision value 1.35
SVM RNA-class probability 0.945502
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1256860 120 + 23771897
UAUCAACUAGUCUGGAGGUGGCAGGUAGAGCCCUUUAAAGCUUAUUGCUAGUGUUUACCCACCACUUCGUGAGUGGGCGUGGCUGCCGCCCAUGGCCCUGCGGCGGUCAGCUUUCAACAA
......(((.((..(((((((..((((((.(.((....(((.....))))).)))))))..)))))))..)).)))((.((((((((((..........))))))))))))......... ( -43.50)
>DroSec_CAF1 11648 107 + 1
UAUCAACUAGUCUGGA-----------GUGCCCUUCAAAGCUUAUUGCUAG--CUUACUCACCUCUUCGUGAGUGGGCGUGGCUCCCGCCCAUGGCCCUGCGGCGGUCAGCUUUCAACAA
.........((..(((-----------((((((.....(((.....))).(--(((((((((......))))))))))).)))..(((((((......)).)))))...)))))..)).. ( -36.30)
>DroSim_CAF1 11610 91 + 1
---------------------------CAGCCCUUCAAAGCUUAUUGCUAG--CUUACUCACCUCUUCGUGAGUGGGCGUGGCUCCCGCCCAUGGCCCUGCGGCGGUCAGCUUUCAACAA
---------------------------.........((((((....(((((--(((((((((......)))))))))).))))..(((((((......)).)))))..))))))...... ( -33.90)
>consensus
UAUCAACUAGUCUGGA___________GAGCCCUUCAAAGCUUAUUGCUAG__CUUACUCACCUCUUCGUGAGUGGGCGUGGCUCCCGCCCAUGGCCCUGCGGCGGUCAGCUUUCAACAA
.............................((((.....(((.....))).......((((((......))))))))))(.((((.(((((((......)).)))))..))))..)..... (-29.00 = -29.33 +   0.33)

alignment

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secondary structure

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dotplot

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Window 7

Location 1,256,860 – 1,256,980
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.25
Mean single sequence MFE -36.77
Consensus MFE -31.32
Energy contribution -31.10
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.35
Structure conservation index 0.85
SVM decision value 0.74
SVM RNA-class probability 0.837375
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1256860 120 - 23771897
UUGUUGAAAGCUGACCGCCGCAGGGCCAUGGGCGGCAGCCACGCCCACUCACGAAGUGGUGGGUAAACACUAGCAAUAAGCUUUAAAGGGCUCUACCUGCCACCUCCAGACUAGUUGAUA
.((((....((((.(((((.((......)))))))))))...((((((.(((...))))))))).))))....((((.((((......(((.......)))......)).)).))))... ( -39.50)
>DroSec_CAF1 11648 107 - 1
UUGUUGAAAGCUGACCGCCGCAGGGCCAUGGGCGGGAGCCACGCCCACUCACGAAGAGGUGAGUAAG--CUAGCAAUAAGCUUUGAAGGGCAC-----------UCCAGACUAGUUGAUA
.(((..(.(((((.(((((.((......))))))).......((((((((((......))))))(((--((.......)))))....))))..-----------..))).))..)..))) ( -36.00)
>DroSim_CAF1 11610 91 - 1
UUGUUGAAAGCUGACCGCCGCAGGGCCAUGGGCGGGAGCCACGCCCACUCACGAAGAGGUGAGUAAG--CUAGCAAUAAGCUUUGAAGGGCUG---------------------------
.(((((..((((..........((((....(((....)))..))))((((((......)))))).))--))..)))))(((((....))))).--------------------------- ( -34.80)
>consensus
UUGUUGAAAGCUGACCGCCGCAGGGCCAUGGGCGGGAGCCACGCCCACUCACGAAGAGGUGAGUAAG__CUAGCAAUAAGCUUUGAAGGGCUC___________UCCAGACUAGUUGAUA
.........(((..(((((.((......))))))).)))...((((((((((......)))))).......(((.....))).....))))............................. (-31.32 = -31.10 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:37 2006