Locus 7513

Sequence ID 3L_DroMel_CAF1
Location 20,194,251 – 20,194,341
Length 90
Max. P 0.998637
window12218 window12219

overview

Window 8

Location 20,194,251 – 20,194,341
Length 90
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 96.74
Mean single sequence MFE -23.83
Consensus MFE -22.82
Energy contribution -22.98
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.89
Structure conservation index 0.96
SVM decision value 3.17
SVM RNA-class probability 0.998637
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20194251 90 + 23771897
CCUUGCCA------CAGUCUUUGACGUUUUCAGCAUUGUGUUAAUAGCAGACGAAUAAAUUUGCAUCAAAAUGGAUGAGAACGGCAAGUACUUUGU
.((((((.------..(((...)))(((((((.((((.((......(((((........)))))..)).))))..)))))))))))))........ ( -23.60)
>DroSec_CAF1 8351 90 + 1
CCUUGCCA------CAGUCUUUGACGUUUUCAGCAUUGUGUUAAUAGCAGACGAAUAAAUUUGCAUCAAAAUGGAUGAGAACGGCAAGUACUUUGU
.((((((.------..(((...)))(((((((.((((.((......(((((........)))))..)).))))..)))))))))))))........ ( -23.60)
>DroSim_CAF1 3060 90 + 1
CCUUGCCA------CAGUCUUUGACGUUUUCAGCAUUGUGUUAAUAGCAGACGAAUAAAUUUGCAUCAAAAUGGAUGAGAACGGCAAGUACUUUGU
.((((((.------..(((...)))(((((((.((((.((......(((((........)))))..)).))))..)))))))))))))........ ( -23.60)
>DroEre_CAF1 2824 96 + 1
CCUUGCCACAGCCACAGUCUUUGACGUUUUCAGCAUUGUGGUAAUAGCAGACGAAUAAAUUUGCAUCAAAAUGGAUGAGAACGGCAAGUACUUUGU
.((((((.........(((...)))(((((((.((((.((((....(((((........))))))))).))))..)))))))))))))........ ( -26.00)
>DroYak_CAF1 16579 90 + 1
CCUUGCCA------CAGUCUUUGACGUUUUCAGCAUUGUGUUAAUAGCAGACGAAUAAAUUUGCAUCAAAAUGGAUGAGAACGGCAAGUACUUUGU
.((((((.------..(((...)))(((((((.((((.((......(((((........)))))..)).))))..)))))))))))))........ ( -23.60)
>DroAna_CAF1 6257 90 + 1
CCUCGCCA------CAGUCUUUGACGUUUUCAGCAUUGUGUGAAUAGCAGACGAAUAAAUUUGCAUCAAAAUGGAUGAGAACGGCAAGUACUUUGU
......((------.(((.((((.((((((((.((((...(((...(((((........))))).))).))))..)))))))).)))).))).)). ( -22.60)
>consensus
CCUUGCCA______CAGUCUUUGACGUUUUCAGCAUUGUGUUAAUAGCAGACGAAUAAAUUUGCAUCAAAAUGGAUGAGAACGGCAAGUACUUUGU
.((((((.........(((...)))(((((((.((((.((......(((((........)))))..)).))))..)))))))))))))........ (-22.82 = -22.98 +   0.17)

alignment

Postscript

secondary structure

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dotplot

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Window 9

Location 20,194,251 – 20,194,341
Length 90
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 96.74
Mean single sequence MFE -18.68
Consensus MFE -17.99
Energy contribution -18.18
Covariance contribution 0.20
Combinations/Pair 1.03
Mean z-score -0.88
Structure conservation index 0.96
SVM decision value 0.49
SVM RNA-class probability 0.758127
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20194251 90 - 23771897
ACAAAGUACUUGCCGUUCUCAUCCAUUUUGAUGCAAAUUUAUUCGUCUGCUAUUAACACAAUGCUGAAAACGUCAAAGACUG------UGGCAAGG
........(((((((((.(((..((((((((((((.((......)).))).)))))...)))).))).)))(((...)))..------.)))))). ( -18.70)
>DroSec_CAF1 8351 90 - 1
ACAAAGUACUUGCCGUUCUCAUCCAUUUUGAUGCAAAUUUAUUCGUCUGCUAUUAACACAAUGCUGAAAACGUCAAAGACUG------UGGCAAGG
........(((((((((.(((..((((((((((((.((......)).))).)))))...)))).))).)))(((...)))..------.)))))). ( -18.70)
>DroSim_CAF1 3060 90 - 1
ACAAAGUACUUGCCGUUCUCAUCCAUUUUGAUGCAAAUUUAUUCGUCUGCUAUUAACACAAUGCUGAAAACGUCAAAGACUG------UGGCAAGG
........(((((((((.(((..((((((((((((.((......)).))).)))))...)))).))).)))(((...)))..------.)))))). ( -18.70)
>DroEre_CAF1 2824 96 - 1
ACAAAGUACUUGCCGUUCUCAUCCAUUUUGAUGCAAAUUUAUUCGUCUGCUAUUACCACAAUGCUGAAAACGUCAAAGACUGUGGCUGUGGCAAGG
........(((((((((.(((..((((.(((((((.((......)).))).))))....)))).))).)))((((.......))))...)))))). ( -18.90)
>DroYak_CAF1 16579 90 - 1
ACAAAGUACUUGCCGUUCUCAUCCAUUUUGAUGCAAAUUUAUUCGUCUGCUAUUAACACAAUGCUGAAAACGUCAAAGACUG------UGGCAAGG
........(((((((((.(((..((((((((((((.((......)).))).)))))...)))).))).)))(((...)))..------.)))))). ( -18.70)
>DroAna_CAF1 6257 90 - 1
ACAAAGUACUUGCCGUUCUCAUCCAUUUUGAUGCAAAUUUAUUCGUCUGCUAUUCACACAAUGCUGAAAACGUCAAAGACUG------UGGCGAGG
........(((((((((.(((..((((.(((.(((.((......)).)))...)))...)))).))).)))(((...)))..------.)))))). ( -18.40)
>consensus
ACAAAGUACUUGCCGUUCUCAUCCAUUUUGAUGCAAAUUUAUUCGUCUGCUAUUAACACAAUGCUGAAAACGUCAAAGACUG______UGGCAAGG
........(((((((((.(((..((((((((((((.((......)).))).)))))...)))).))).)))(((...))).........)))))). (-17.99 = -18.18 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:10 2006