Locus 6714

Sequence ID 2L_DroMel_CAF1
Location 18,748,481 – 18,748,581
Length 100
Max. P 0.999200
window10722 window10723

overview

Window 2

Location 18,748,481 – 18,748,581
Length 100
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 92.28
Mean single sequence MFE -38.65
Consensus MFE -34.86
Energy contribution -35.25
Covariance contribution 0.39
Combinations/Pair 1.07
Mean z-score -3.00
Structure conservation index 0.90
SVM decision value 3.43
SVM RNA-class probability 0.999200
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18748481 100 + 22407834
UUCAAGGCGGUGCUGGGUGGUGCAGCCUCUGCGGUUGCGGCGCGAAAUGGCUAAAAGCAAAUUGACGCCGCAACAAAUGCCAGA---GCAGCAAAAGCAAAGC
......((..(((((..((((((((...)))).((((((((((((....((.....))...))).)))))))))....))))..---.)))))...))..... ( -39.60)
>DroSec_CAF1 12071 100 + 1
UUCAAGGCGGUGCUGGGUGGUGCAGCCUCUGCGGUUGCGGCGCGAAAUGGCUAAAAGCAAAUUGACGCCGCAACAAAUGCCAGA---GCAGCAAAAGCAAUGC
......((..(((((..((((((((...)))).((((((((((((....((.....))...))).)))))))))....))))..---.)))))...))..... ( -39.60)
>DroSim_CAF1 12291 100 + 1
UUCAGGGCGGUGCUGGGUGGUGCAGCCUCUGCGGUUGCGGCGCGAAAUGGCUAAAAGCAAAUUGACGCCGCAACAAAUGCCAGA---GCAGCAAAAGCAAUGC
..((..((..(((((..((((((((...)))).((((((((((((....((.....))...))).)))))))))....))))..---.)))))...))..)). ( -40.70)
>DroEre_CAF1 12420 100 + 1
UUCAAGGCGGUGCUGGGUGGUGCAGCCUCUGCGGUUGCGGCGCGAAAUGGCUAAAAGCAAAUUGACGCCGCAACAAAUGCCAGA---GCAGCAACAGCAAAGC
......((..(((((.....(((.((.(((((.((((((((((((....((.....))...))).)))))))))....).))))---)).))).)))))..)) ( -40.50)
>DroYak_CAF1 12108 103 + 1
UUCAAGGCGGUGCUGGGUGGUGCAGCCUCUGCGGUUGCGGCGCGAAAUGGCUAAAAGCAAAUUGACGCCGCAACAAAUGCCAGAUUUGCAGCAAAAGCAAAGC
......((..((((...((.(((((..(((((.((((((((((((....((.....))...))).)))))))))....).)))).))))).))..))))..)) ( -40.90)
>DroAna_CAF1 9661 90 + 1
------GUGGU----GGUGGUGCAGUCUCUGCGGUUGUGGCGCGAAAUGGCUUAAAGCAAAUUGACGCCGCAACAAAUGCCAAA---GCAGAAAAGGCAAAGC
------((..(----(((..(((((...)))))((((((((((((....((.....))...))).)))))))))....))))..---)).............. ( -30.60)
>consensus
UUCAAGGCGGUGCUGGGUGGUGCAGCCUCUGCGGUUGCGGCGCGAAAUGGCUAAAAGCAAAUUGACGCCGCAACAAAUGCCAGA___GCAGCAAAAGCAAAGC
......((..(((((..((((((((...)))).((((((((((((....((.....))...))).)))))))))....))))......)))))...))..... (-34.86 = -35.25 +   0.39)

alignment

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secondary structure

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dotplot

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Window 3

Location 18,748,481 – 18,748,581
Length 100
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 92.28
Mean single sequence MFE -34.58
Consensus MFE -30.70
Energy contribution -31.23
Covariance contribution 0.53
Combinations/Pair 1.04
Mean z-score -2.67
Structure conservation index 0.89
SVM decision value 2.68
SVM RNA-class probability 0.996324
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18748481 100 - 22407834
GCUUUGCUUUUGCUGC---UCUGGCAUUUGUUGCGGCGUCAAUUUGCUUUUAGCCAUUUCGCGCCGCAACCGCAGAGGCUGCACCACCCAGCACCGCCUUGAA
((...(((((((((((---....)))...((((((((((.((...((.....))...)).)))))))))).)))))))).))..................... ( -36.20)
>DroSec_CAF1 12071 100 - 1
GCAUUGCUUUUGCUGC---UCUGGCAUUUGUUGCGGCGUCAAUUUGCUUUUAGCCAUUUCGCGCCGCAACCGCAGAGGCUGCACCACCCAGCACCGCCUUGAA
((...(((((((((((---....)))...((((((((((.((...((.....))...)).)))))))))).))))))))(((........)))..))...... ( -36.70)
>DroSim_CAF1 12291 100 - 1
GCAUUGCUUUUGCUGC---UCUGGCAUUUGUUGCGGCGUCAAUUUGCUUUUAGCCAUUUCGCGCCGCAACCGCAGAGGCUGCACCACCCAGCACCGCCCUGAA
((...(((((((((((---....)))...((((((((((.((...((.....))...)).)))))))))).))))))))(((........)))..))...... ( -36.70)
>DroEre_CAF1 12420 100 - 1
GCUUUGCUGUUGCUGC---UCUGGCAUUUGUUGCGGCGUCAAUUUGCUUUUAGCCAUUUCGCGCCGCAACCGCAGAGGCUGCACCACCCAGCACCGCCUUGAA
((..(((((.(((.((---((((.(....((((((((((.((...((.....))...)).)))))))))).))))).)).))).....)))))..))...... ( -36.40)
>DroYak_CAF1 12108 103 - 1
GCUUUGCUUUUGCUGCAAAUCUGGCAUUUGUUGCGGCGUCAAUUUGCUUUUAGCCAUUUCGCGCCGCAACCGCAGAGGCUGCACCACCCAGCACCGCCUUGAA
((...(((((((((((.......)))...((((((((((.((...((.....))...)).)))))))))).)))))))).))..................... ( -35.50)
>DroAna_CAF1 9661 90 - 1
GCUUUGCCUUUUCUGC---UUUGGCAUUUGUUGCGGCGUCAAUUUGCUUUAAGCCAUUUCGCGCCACAACCGCAGAGACUGCACCACC----ACCAC------
....(((..(((((((---.((((((.....)))(((((.((...((.....))...)).))))).)))..)))))))..))).....----.....------ ( -26.00)
>consensus
GCUUUGCUUUUGCUGC___UCUGGCAUUUGUUGCGGCGUCAAUUUGCUUUUAGCCAUUUCGCGCCGCAACCGCAGAGGCUGCACCACCCAGCACCGCCUUGAA
((...(((((((((((.......)))...((((((((((.((...((.....))...)).)))))))))).)))))))).))..................... (-30.70 = -31.23 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:15 2006