Locus 196

Sequence ID 3R_DroMel_CAF1
Location 856,161 – 856,278
Length 117
Max. P 0.975300
window338 window339

overview

Window 8

Location 856,161 – 856,278
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.84
Mean single sequence MFE -38.23
Consensus MFE -33.67
Energy contribution -35.80
Covariance contribution 2.13
Combinations/Pair 1.05
Mean z-score -3.01
Structure conservation index 0.88
SVM decision value 1.75
SVM RNA-class probability 0.975300
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 856161 117 + 27905053
GCUUCAUCCACAAUCCGAUUCGCCGU---UCGGUCACUCGAAGCCAUUCAGAAAAGCGAAUUGGAUUUUCAUUCGAAUUUUGAAUUCAUAAUUCUACGGAGUUGUCUCCGUGGCUGCGGU
(((.((.((((((((((((((((..(---(((((........))).....)))..)))))))))))).......(((((.((....)).)))))...((((....)))))))).)).))) ( -37.70)
>DroSec_CAF1 30977 120 + 1
GCUUCAUCCACAAUCCGAUUCGCCGUUCUUCGGUCACUCGAAGCCAUUGAGAAAAGCGAAUUGGAUUUUCAUUCGAAUUUUGAAUUCAUAAUUCUACGGAGUUGUCUCCGUGGCUGCGGU
(((.((.((((((((((((((((..(((((.(((........)))...)))))..)))))))))))).......(((((.((....)).)))))...((((....)))))))).)).))) ( -41.70)
>DroSim_CAF1 30127 120 + 1
GCUUCAUCCACAAUCCGAUUCGCCGUUCUUCGGUCACUCGAAGCCAUUGAGAAAAGCGAAUUGGAUUUUCAUUCGAAUUUUGAAUUCAUAAUUCUACGGAGUUGUCUCCGUGGCUGCGGU
(((.((.((((((((((((((((..(((((.(((........)))...)))))..)))))))))))).......(((((.((....)).)))))...((((....)))))))).)).))) ( -41.70)
>DroEre_CAF1 31234 116 + 1
GCUUCAUCCACAAUCCGAUUCGCCGU---UCGGCCACUCGA-GCCAUUCAGAAGAGCGAAUUGGAUUUUCAUUCGAAUUUUGAAUUUAUAUUUCCACGGAGUUGUCUCCCUGGCUGCGGU
((((((.....((((((((((((.((---((((....))))-))...((....))))))))))))))(((....)))...)))).........(((.((((....)))).)))..))... ( -31.80)
>consensus
GCUUCAUCCACAAUCCGAUUCGCCGU___UCGGUCACUCGAAGCCAUUCAGAAAAGCGAAUUGGAUUUUCAUUCGAAUUUUGAAUUCAUAAUUCUACGGAGUUGUCUCCGUGGCUGCGGU
(((.((.((((((((((((((((..(((((.(((........)))...)))))..)))))))))))).......(((((.((....)).)))))...((((....)))))))).)).))) (-33.67 = -35.80 +   2.13) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 856,161 – 856,278
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 94.84
Mean single sequence MFE -36.58
Consensus MFE -29.65
Energy contribution -31.90
Covariance contribution 2.25
Combinations/Pair 1.00
Mean z-score -2.53
Structure conservation index 0.81
SVM decision value 0.71
SVM RNA-class probability 0.829139
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 856161 117 - 27905053
ACCGCAGCCACGGAGACAACUCCGUAGAAUUAUGAAUUCAAAAUUCGAAUGAAAAUCCAAUUCGCUUUUCUGAAUGGCUUCGAGUGACCGA---ACGGCGAAUCGGAUUGUGGAUGAAGC
.((((....((((((....)))))).(((((.((....)).))))).......(((((.(((((((.(((.(..(.((.....)).)).))---).))))))).)))))))))....... ( -34.30)
>DroSec_CAF1 30977 120 - 1
ACCGCAGCCACGGAGACAACUCCGUAGAAUUAUGAAUUCAAAAUUCGAAUGAAAAUCCAAUUCGCUUUUCUCAAUGGCUUCGAGUGACCGAAGAACGGCGAAUCGGAUUGUGGAUGAAGC
.((((....((((((....)))))).(((((.((....)).))))).......(((((.(((((((.((((...((((.......).))).)))).))))))).)))))))))....... ( -37.40)
>DroSim_CAF1 30127 120 - 1
ACCGCAGCCACGGAGACAACUCCGUAGAAUUAUGAAUUCAAAAUUCGAAUGAAAAUCCAAUUCGCUUUUCUCAAUGGCUUCGAGUGACCGAAGAACGGCGAAUCGGAUUGUGGAUGAAGC
.((((....((((((....)))))).(((((.((....)).))))).......(((((.(((((((.((((...((((.......).))).)))).))))))).)))))))))....... ( -37.40)
>DroEre_CAF1 31234 116 - 1
ACCGCAGCCAGGGAGACAACUCCGUGGAAAUAUAAAUUCAAAAUUCGAAUGAAAAUCCAAUUCGCUCUUCUGAAUGGC-UCGAGUGGCCGA---ACGGCGAAUCGGAUUGUGGAUGAAGC
.((((..(((.((((....)))).)))........((((.......))))...(((((.(((((((.(((.....(((-(.....))))))---).))))))).)))))))))....... ( -37.20)
>consensus
ACCGCAGCCACGGAGACAACUCCGUAGAAUUAUGAAUUCAAAAUUCGAAUGAAAAUCCAAUUCGCUUUUCUCAAUGGCUUCGAGUGACCGA___ACGGCGAAUCGGAUUGUGGAUGAAGC
.((((....((((((....)))))).(((((.((....)).))))).......(((((.(((((((.((((...((((.......).))).)))).))))))).)))))))))....... (-29.65 = -31.90 +   2.25) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:01 2006