Locus 6349

Sequence ID 2L_DroMel_CAF1
Location 17,728,689 – 17,728,830
Length 141
Max. P 0.986083
window10148 window10149

overview

Window 8

Location 17,728,689 – 17,728,795
Length 106
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 87.41
Mean single sequence MFE -27.78
Consensus MFE -21.94
Energy contribution -21.80
Covariance contribution -0.14
Combinations/Pair 1.05
Mean z-score -2.39
Structure conservation index 0.79
SVM decision value 0.32
SVM RNA-class probability 0.685256
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17728689 106 + 22407834
--A-AUGCUUCCUUCUUU-UUUGGACGCAGUGCGC--------AUCCAUCUUUGCCGAAAUUUCCC--AUUUUCCCAUCCGUCUGCCGCCAUGGCAACAUGGUCGCAAUAGACGCCAUUU
--.-.(((.(((......-...))).)))(.((((--------(........))).((((......--..))))......((((((.((((((....)))))).))...))))))).... ( -28.70)
>DroSec_CAF1 28909 107 + 1
--A-AUGCUUCCUCCUUUUUUUGGACGCAGUGCGC--------AUCCAUCUUUGCCGAAAUUUCCC--AUUUUCCCAUCCGUCUGCCGCCAUGGCAACAUGGUCGCAAUAGACGCCAUUU
--.-.(((.(((..........))).)))(.((((--------(........))).((((......--..))))......((((((.((((((....)))))).))...))))))).... ( -28.60)
>DroSim_CAF1 30267 107 + 1
--A-AUGCUUCCUCCUUUUUUUGGACGCAGUGCGC--------AUCCAUCUUUGCCGAAAUUUCCC--AUUUUCCCAUCCGUCUGCCGCCAUGGCAACAUGGUCGCAAUAGACGCCAUUU
--.-.(((.(((..........))).)))(.((((--------(........))).((((......--..))))......((((((.((((((....)))))).))...))))))).... ( -28.60)
>DroEre_CAF1 38706 109 + 1
UGAUAUUCUUCCUCCUUU-UUUGGACGCAGUGCGC--------AUCCAUCUUUGCCGAAAUUUCCC--AUUUUCCCAUCCGUCUGCCGCCAUGGCAACAUGGUCGCAACAGACGCCAUUU
.(((..............-..((((.((.....))--------.))))........((((......--..))))..)))((((((.(((((((....))))).))...))))))...... ( -26.40)
>DroYak_CAF1 31130 107 + 1
--AUAGUCUUCCUCCUUU-UCUGGACGCAGUGCGC--------AUCCAUCUUUGCCGAAAUUUCCC--AUUUUCCCAUCCGUCUGCCGCCAUGGCAACAUGGUCGCAAUAGACGCCAUUU
--...((((.........-...(((((..(((.((--------(........))).((((......--..)))).))).)))))((.((((((....)))))).))...))))....... ( -27.20)
>DroAna_CAF1 38379 104 + 1
--A-GA----------UU-UUUGGACGCAGUGCGCCAGCCUCGGUCCAACCU--CCCGAAUUUCCCGAAUGUUCCCAUCCGUCUGCUGCUAUGGCAACAUGGUCGCAAUAGACGCCAUUU
--.-..----------..-.((((((.(((.((....)))).)))))))...--...((((.........)))).....(((((((.((((((....)))))).))...)))))...... ( -27.20)
>consensus
__A_AUGCUUCCUCCUUU_UUUGGACGCAGUGCGC________AUCCAUCUUUGCCGAAAUUUCCC__AUUUUCCCAUCCGUCUGCCGCCAUGGCAACAUGGUCGCAAUAGACGCCAUUU
.....................(((.(((...))).............................................(((((((.((((((....)))))).))...))))))))... (-21.94 = -21.80 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 9

Location 17,728,720 – 17,728,830
Length 110
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.00
Mean single sequence MFE -28.20
Consensus MFE -25.67
Energy contribution -25.45
Covariance contribution -0.22
Combinations/Pair 1.13
Mean z-score -1.93
Structure conservation index 0.91
SVM decision value 2.03
SVM RNA-class probability 0.986083
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17728720 110 + 22407834
---AUCCAUCUUUGCCGAAAUUUCCC--AUUUUCCCAUCCGUCUGCCGCCAUGGCAACAUGGUCGCAAUAGACGCCAUUUUGUUGCCACAUCUCU-UGGUGGAAAUCUGUAUCUGU----
---.((((((......((((......--..)))).....(((((((.((((((....)))))).))...))))).....................-.)))))).............---- ( -27.50)
>DroSec_CAF1 28941 110 + 1
---AUCCAUCUUUGCCGAAAUUUCCC--AUUUUCCCAUCCGUCUGCCGCCAUGGCAACAUGGUCGCAAUAGACGCCAUUUUGUUGCCACAUCUCU-UGGUGGAAAUCUGUAUCUGU----
---.((((((......((((......--..)))).....(((((((.((((((....)))))).))...))))).....................-.)))))).............---- ( -27.50)
>DroSim_CAF1 30299 110 + 1
---AUCCAUCUUUGCCGAAAUUUCCC--AUUUUCCCAUCCGUCUGCCGCCAUGGCAACAUGGUCGCAAUAGACGCCAUUUUGUUGCCACAUCUCU-UGGUGGAAAUCUGUAUCUGU----
---.((((((......((((......--..)))).....(((((((.((((((....)))))).))...))))).....................-.)))))).............---- ( -27.50)
>DroEre_CAF1 38740 110 + 1
---AUCCAUCUUUGCCGAAAUUUCCC--AUUUUCCCAUCCGUCUGCCGCCAUGGCAACAUGGUCGCAACAGACGCCAUUUUGUUGCCACAUCUCU-UGGUGGAAAUCUGUAUCUGU----
---.((((((......((((......--..)))).....((((((.(((((((....))))).))...)))))).....................-.)))))).............---- ( -27.80)
>DroYak_CAF1 31162 114 + 1
---AUCCAUCUUUGCCGAAAUUUCCC--AUUUUCCCAUCCGUCUGCCGCCAUGGCAACAUGGUCGCAAUAGACGCCAUUUUGUUGCCACAUCUCU-UGGUGGAAUUCUGUAUCUGUAUUC
---.((((((......((((......--..)))).....(((((((.((((((....)))))).))...))))).....................-.))))))................. ( -27.50)
>DroAna_CAF1 38405 114 + 1
UCGGUCCAACCU--CCCGAAUUUCCCGAAUGUUCCCAUCCGUCUGCUGCUAUGGCAACAUGGUCGCAAUAGACGCCAUUUUGUUGCCACAUCUCUUUGGUGGAGGUCUGUAUCUGU----
..(((.((((((--((.......................(((((((.((((((....)))))).))...)))))..........((((........)))))))))).)).)))...---- ( -31.40)
>consensus
___AUCCAUCUUUGCCGAAAUUUCCC__AUUUUCCCAUCCGUCUGCCGCCAUGGCAACAUGGUCGCAAUAGACGCCAUUUUGUUGCCACAUCUCU_UGGUGGAAAUCUGUAUCUGU____
...................((((((..............(((((((.((((((....)))))).))...)))))..........((((........)))))))))).............. (-25.67 = -25.45 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:57 2006