Locus 6434

Sequence ID 3L_DroMel_CAF1
Location 17,220,148 – 17,220,291
Length 143
Max. P 0.986515
window10318 window10319

overview

Window 8

Location 17,220,148 – 17,220,251
Length 103
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 95.63
Mean single sequence MFE -29.70
Consensus MFE -26.55
Energy contribution -26.68
Covariance contribution 0.13
Combinations/Pair 1.08
Mean z-score -2.63
Structure conservation index 0.89
SVM decision value 1.53
SVM RNA-class probability 0.961465
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17220148 103 + 23771897
GCAAAACUGCAUUUUGUAGACAAGCCGAAAACCGAAAACUGCCAGCCAAAACGGAAAUAUUCAAAAAUGGUUGGCGGAGUGGGCGGUAGUGGGCGGUAGAGUU
......((((...(((....)))(((.(..((((.(..((((((((((.....((.....)).....))))))))))..)...))))..).))).)))).... ( -33.80)
>DroSec_CAF1 103488 103 + 1
GCAAAACUGCAUUUUGUAGACAAGCCGAAAACCGAAAACUGCCAGCCAAAACGGAAAUAUUCAAAAAUGGUUGGCGGAGUGAGCGGUAGUGGGUGGUAGAGUU
......((((...(((....)))(((.(..((((.(..((((((((((.....((.....)).....))))))))))..)...))))..).))).)))).... ( -31.50)
>DroEre_CAF1 106840 103 + 1
GCAAAACUGCAUUUUGUAGACAAGCCGAAAACCGAAAACUGCCAGCCAAAACGGAAAUAUUCAAAAAUGGUUGGCGGAGUGGGUGGUAGUGGGAGGAAAAGUU
(((....))).((((.(...((.((((....(((....((((((((((.....((.....)).....))))))))))..))).))))..))..).)))).... ( -27.70)
>DroYak_CAF1 109401 103 + 1
GCAAAACUGCAUUUUGUAGACAAGCCGAAAACCGAAAACUGCCAGCCAAAACGGAAAUAUUCAAAAAUGCUUGGCGGAGUGGGCGGCAGUGGGAGGUGAAGUU
....((((.((((((.((.....((((....(((....((((((((.......((.....))......)).))))))..))).))))..)).)))))).)))) ( -25.82)
>consensus
GCAAAACUGCAUUUUGUAGACAAGCCGAAAACCGAAAACUGCCAGCCAAAACGGAAAUAUUCAAAAAUGGUUGGCGGAGUGGGCGGUAGUGGGAGGUAAAGUU
......((((.....)))).((.((((....(((....((((((((((.....((.....)).....))))))))))..))).))))..))............ (-26.55 = -26.68 +   0.13)

alignment

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secondary structure

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dotplot

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Window 9

Location 17,220,171 – 17,220,291
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.17
Mean single sequence MFE -48.86
Consensus MFE -43.60
Energy contribution -45.10
Covariance contribution 1.50
Combinations/Pair 1.10
Mean z-score -3.11
Structure conservation index 0.89
SVM decision value 2.04
SVM RNA-class probability 0.986515
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17220171 120 + 23771897
GCCGAAAACCGAAAACUGCCAGCCAAAACGGAAAUAUUCAAAAAUGGUUGGCGGAGUGGGCGGUAGUGGGCGGUAGAGUUCAGUGGGUGGGGACGGCCUAUCUGCCAACUCUCGGCCUCU
((((....(((....((((((((((.....((.....)).....))))))))))..))).))))...((((.(.((((((..(..((((((.....))))))..).))))))).)))).. ( -50.00)
>DroSec_CAF1 103511 120 + 1
GCCGAAAACCGAAAACUGCCAGCCAAAACGGAAAUAUUCAAAAAUGGUUGGCGGAGUGAGCGGUAGUGGGUGGUAGAGUUCGGUGGGUGGGGACGGCCUAUCUGCCAACUCUCGGCCUCU
(((.(..((((.(..((((((((((.....((.....)).....))))))))))..)...))))..).)))(((((((((.((..((((((.....))))))..))))))))..)))... ( -51.10)
>DroEre_CAF1 106863 120 + 1
GCCGAAAACCGAAAACUGCCAGCCAAAACGGAAAUAUUCAAAAAUGGUUGGCGGAGUGGGUGGUAGUGGGAGGAAAAGUUCGGUGGGUGGGGACGGCCUAUCUGCCAACUCUCGGCCUCU
((((....(((....((((((((((.....((.....)).....))))))))))..))).))))....(((((...((((.((..((((((.....))))))..)))))).....))))) ( -46.70)
>DroYak_CAF1 109424 120 + 1
GCCGAAAACCGAAAACUGCCAGCCAAAACGGAAAUAUUCAAAAAUGCUUGGCGGAGUGGGCGGCAGUGGGAGGUGAAGUUCGGUGGGCGGGGACGGCCUAUCUGCCAGCUCUUCGCCUCU
((((....(((....((((((((.......((.....))......)).))))))..))).))))....((((((((((..(((..(..(((.....)))..)..)).)..)))))))))) ( -47.62)
>consensus
GCCGAAAACCGAAAACUGCCAGCCAAAACGGAAAUAUUCAAAAAUGGUUGGCGGAGUGGGCGGUAGUGGGAGGUAAAGUUCGGUGGGUGGGGACGGCCUAUCUGCCAACUCUCGGCCUCU
((((....(((....((((((((((.....((.....)).....))))))))))..))).))))....((((((((((((.((..((((((.....))))))..))))))))..)))))) (-43.60 = -45.10 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:35 2006