Locus 4208

Sequence ID X_DroMel_CAF1
Location 11,035,432 – 11,035,538
Length 106
Max. P 0.982095
window6916 window6917

overview

Window 6

Location 11,035,432 – 11,035,538
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.31
Mean single sequence MFE -36.28
Consensus MFE -29.38
Energy contribution -29.82
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.40
Structure conservation index 0.81
SVM decision value 0.12
SVM RNA-class probability 0.594449
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11035432 106 + 22224390
UGGCGGGCAAAGUCUGAAAAAUGACAGGCACCGCAGCGCCACUGACAUGACAGACAUCCUGU-UCCCUGGGAAACGGAAACCGGACAGCCU-------------CCCCCACCGAAUUUUC
.((.((((...(((((....(((.(((((........)))..)).)))..))))).(((.((-(.((..(....))).))).)))..))))-------------.))............. ( -28.90)
>DroSec_CAF1 22757 107 + 1
UGGCGGGCAAAGUCUGAAGAAUGACAGGCGCCGCAGCGCCACUGACAUGACAGACAUCCUGUUUCCCUGGGAAACGGAAACCGGACAGCCU-------------CCCCCACCGAAUUUUC
.((.((((...(((((....(((.(((((((....)))))..)).)))..))))).(((.((((((...(....))))))).)))..))))-------------.))............. ( -38.20)
>DroSim_CAF1 14544 107 + 1
UGGCGGGCAAAGUCUGAAAAAUGACAGGCGCCGCAGCGCCACUGACAUGACAGACAUCCUGUUUCCCUGGGAAACGGAAACCGGACAGCCU-------------CCCCCACCGAAUUUUC
.((.((((...(((((....(((.(((((((....)))))..)).)))..))))).(((.((((((...(....))))))).)))..))))-------------.))............. ( -38.20)
>DroEre_CAF1 17032 106 + 1
UGGCGGGCAAAGUCUGAAAAAUGACAGGCGGCGCAGCGCCACUGACAUGACAGACAUCCUGU-UGCCUGGGACACGGAAGCCGGACAGCCU-------------CCCCCGCCGAAUUUUC
.((((((....(((((....(((.(((..((((...)))).))).)))..))))).....((-((.((((....(....))))).))))..-------------..))))))........ ( -39.40)
>DroYak_CAF1 17860 119 + 1
UGGCGGGCAAAGUCUGAAAAAUGACAGGCGCCGCAGCGCCACUGACAUGACAGACAUCCUGU-UCCCUGGGAAACGGAAACCGGACAGCCUCAGCCUCAGCCUCCCCCCACCGAAUUUUC
.(((((((...(((((....(((.(((((((....)))))..)).)))..)))))...((((-((....(....)(....).)))))).....))))..))).................. ( -36.70)
>consensus
UGGCGGGCAAAGUCUGAAAAAUGACAGGCGCCGCAGCGCCACUGACAUGACAGACAUCCUGU_UCCCUGGGAAACGGAAACCGGACAGCCU_____________CCCCCACCGAAUUUUC
.((.(((....(((((....(((.(((((((....)))))..)).)))..))))).(((.((.(((...(....)))).)).))).....................))).))........ (-29.38 = -29.82 +   0.44)

alignment

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secondary structure

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dotplot

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Window 7

Location 11,035,432 – 11,035,538
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.31
Mean single sequence MFE -47.26
Consensus MFE -37.74
Energy contribution -37.82
Covariance contribution 0.08
Combinations/Pair 1.07
Mean z-score -2.43
Structure conservation index 0.80
SVM decision value 1.91
SVM RNA-class probability 0.982095
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11035432 106 - 22224390
GAAAAUUCGGUGGGGG-------------AGGCUGUCCGGUUUCCGUUUCCCAGGGA-ACAGGAUGUCUGUCAUGUCAGUGGCGCUGCGGUGCCUGUCAUUUUUCAGACUUUGCCCGCCA
........((((((.(-------------((...((((.((((((........))))-)).))))(((((..(((.((..(((((....))))))).)))....)))))))).)))))). ( -43.90)
>DroSec_CAF1 22757 107 - 1
GAAAAUUCGGUGGGGG-------------AGGCUGUCCGGUUUCCGUUUCCCAGGGAAACAGGAUGUCUGUCAUGUCAGUGGCGCUGCGGCGCCUGUCAUUCUUCAGACUUUGCCCGCCA
........((((((((-------------(((((....)))))))((((((...)))))).....(((((..(((.((..(((((....))))))).)))....)))))....)))))). ( -45.40)
>DroSim_CAF1 14544 107 - 1
GAAAAUUCGGUGGGGG-------------AGGCUGUCCGGUUUCCGUUUCCCAGGGAAACAGGAUGUCUGUCAUGUCAGUGGCGCUGCGGCGCCUGUCAUUUUUCAGACUUUGCCCGCCA
........((((((((-------------(((((....)))))))((((((...)))))).....(((((..(((.((..(((((....))))))).)))....)))))....)))))). ( -45.40)
>DroEre_CAF1 17032 106 - 1
GAAAAUUCGGCGGGGG-------------AGGCUGUCCGGCUUCCGUGUCCCAGGCA-ACAGGAUGUCUGUCAUGUCAGUGGCGCUGCGCCGCCUGUCAUUUUUCAGACUUUGCCCGCCA
........((((((((-------------(((((....)))))))..((((..(...-.).))))(((((..(((.((((((((...))))).))).)))....)))))....)))))). ( -48.70)
>DroYak_CAF1 17860 119 - 1
GAAAAUUCGGUGGGGGGAGGCUGAGGCUGAGGCUGUCCGGUUUCCGUUUCCCAGGGA-ACAGGAUGUCUGUCAUGUCAGUGGCGCUGCGGCGCCUGUCAUUUUUCAGACUUUGCCCGCCA
........((((((.((((.(((((((..((((.((((.((((((........))))-)).)))))))))))(((.((..(((((....))))))).)))...)))).)))).)))))). ( -52.90)
>consensus
GAAAAUUCGGUGGGGG_____________AGGCUGUCCGGUUUCCGUUUCCCAGGGA_ACAGGAUGUCUGUCAUGUCAGUGGCGCUGCGGCGCCUGUCAUUUUUCAGACUUUGCCCGCCA
........((((((....................((((...((((........))))....))))(((((..(((.((..(((((....))))))).)))....)))))....)))))). (-37.74 = -37.82 +   0.08)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:13 2006