Locus 6817

Sequence ID 2L_DroMel_CAF1
Location 19,044,196 – 19,044,288
Length 92
Max. P 0.841176
window10877 window10878

overview

Window 7

Location 19,044,196 – 19,044,288
Length 92
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 87.77
Mean single sequence MFE -17.70
Consensus MFE -14.32
Energy contribution -14.71
Covariance contribution 0.39
Combinations/Pair 1.09
Mean z-score -2.60
Structure conservation index 0.81
SVM decision value 0.75
SVM RNA-class probability 0.841176
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19044196 92 + 22407834
GUAAUAUUCAACUUGAACUGAACCG-ACUUCAAAUUGAAUACUU-UCGCCAACGUCUCAUCCACAUUCUGAUUUUGAGAUUUCAAACUCUCUUU
....(((((((.(((((........-..))))).)))))))...-........((((((...............)))))).............. ( -11.76)
>DroSec_CAF1 12415 92 + 1
GUAAUAUUCAACUUGAAGUGAACCG-ACUUCAAAUUGAAUAUUU-UGGCCAACGUCUCACCCACAUUCUGAUUUUGAGAUUUCAAACUCUCUUU
..(((((((((.(((((((......-))))))).))))))))).-........((((((...............)))))).............. ( -18.26)
>DroSim_CAF1 10757 92 + 1
GUAAUAUUCAACUUGAAGUGAACCG-ACUUCAAAUUGAAUAUUU-UGGCCAACGUCUCACCCACAUUCUGAUUUUGAGAUUUCAAACUCUCUUU
..(((((((((.(((((((......-))))))).))))))))).-........((((((...............)))))).............. ( -18.26)
>DroEre_CAF1 5943 92 + 1
GUAAUAUUCAACUUGAAGUGAACAG-ACUUCAAUUUGAAUAUUU-UCGCCAACGUCCCAUCCACAUUCUGAUUUUGAGAUUUUGGACUCUCUUU
..(((((((((.(((((((......-))))))).))))))))).-...((((.(((.((...............)).))).))))......... ( -20.36)
>DroYak_CAF1 5863 92 + 1
GUAAUAUUCAACUUGAAGUGAACAG-ACUUCAAUUUGAAUAUUU-UCGCCAACGUCUCAUCCACAUUCUGAUUUUGAGAUUUCGAACUCUCUUU
..(((((((((.(((((((......-))))))).)))))))))(-(((.....((((((...............))))))..))))........ ( -20.76)
>DroAna_CAF1 12958 90 + 1
GUAAUAUUCAACUUGAAGUCAAAUGUACUUCAAUUUGAAUAUUUUUUACUGACGUUUU---GACAUUCUAACUUUGAGAUU-CAAAUUACCCUU
..(((((((((.((((((((....).))))))).)))))))))............(((---((..(((.......)))..)-))))........ ( -16.80)
>consensus
GUAAUAUUCAACUUGAAGUGAACCG_ACUUCAAAUUGAAUAUUU_UCGCCAACGUCUCAUCCACAUUCUGAUUUUGAGAUUUCAAACUCUCUUU
..(((((((((.(((((((.......))))))).)))))))))..........((((((...............)))))).............. (-14.32 = -14.71 +   0.39)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,044,196 – 19,044,288
Length 92
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 87.77
Mean single sequence MFE -23.00
Consensus MFE -17.48
Energy contribution -17.70
Covariance contribution 0.22
Combinations/Pair 1.08
Mean z-score -3.03
Structure conservation index 0.76
SVM decision value 0.44
SVM RNA-class probability 0.737652
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19044196 92 - 22407834
AAAGAGAGUUUGAAAUCUCAAAAUCAGAAUGUGGAUGAGACGUUGGCGA-AAGUAUUCAAUUUGAAGU-CGGUUCAGUUCAAGUUGAAUAUUAC
...((((........))))..........(((.((((...)))).))).-.(((((((((((((((.(-......).))))))))))))))).. ( -22.20)
>DroSec_CAF1 12415 92 - 1
AAAGAGAGUUUGAAAUCUCAAAAUCAGAAUGUGGGUGAGACGUUGGCCA-AAAUAUUCAAUUUGAAGU-CGGUUCACUUCAAGUUGAAUAUUAC
.......(.(..(..(((((...(((.....))).)))))..)..).).-.(((((((((((((((((-......))))))))))))))))).. ( -26.20)
>DroSim_CAF1 10757 92 - 1
AAAGAGAGUUUGAAAUCUCAAAAUCAGAAUGUGGGUGAGACGUUGGCCA-AAAUAUUCAAUUUGAAGU-CGGUUCACUUCAAGUUGAAUAUUAC
.......(.(..(..(((((...(((.....))).)))))..)..).).-.(((((((((((((((((-......))))))))))))))))).. ( -26.20)
>DroEre_CAF1 5943 92 - 1
AAAGAGAGUCCAAAAUCUCAAAAUCAGAAUGUGGAUGGGACGUUGGCGA-AAAUAUUCAAAUUGAAGU-CUGUUCACUUCAAGUUGAAUAUUAC
.......(.((((..(((((...(((.....))).)))))..)))))..-.(((((((((.(((((((-......))))))).))))))))).. ( -23.50)
>DroYak_CAF1 5863 92 - 1
AAAGAGAGUUCGAAAUCUCAAAAUCAGAAUGUGGAUGAGACGUUGGCGA-AAAUAUUCAAAUUGAAGU-CUGUUCACUUCAAGUUGAAUAUUAC
...((((........))))..........(((.((((...)))).))).-.(((((((((.(((((((-......))))))).))))))))).. ( -22.40)
>DroAna_CAF1 12958 90 - 1
AAGGGUAAUUUG-AAUCUCAAAGUUAGAAUGUC---AAAACGUCAGUAAAAAAUAUUCAAAUUGAAGUACAUUUGACUUCAAGUUGAAUAUUAC
........((((-(...((.......))...))---)))............(((((((((.(((((((.(....)))))))).))))))))).. ( -17.50)
>consensus
AAAGAGAGUUUGAAAUCUCAAAAUCAGAAUGUGGAUGAGACGUUGGCGA_AAAUAUUCAAAUUGAAGU_CGGUUCACUUCAAGUUGAAUAUUAC
...((((........))))........(((((.......))))).......(((((((((.(((((((.......))))))).))))))))).. (-17.48 = -17.70 +   0.22)

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 12:20:36 2006