Locus 4301

Sequence ID X_DroMel_CAF1
Location 11,349,568 – 11,349,683
Length 115
Max. P 0.658296
window7070 window7071

overview

Window 0

Location 11,349,568 – 11,349,683
Length 115
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 82.32
Mean single sequence MFE -25.27
Consensus MFE -17.94
Energy contribution -19.83
Covariance contribution 1.90
Combinations/Pair 1.12
Mean z-score -1.80
Structure conservation index 0.71
SVM decision value 0.26
SVM RNA-class probability 0.658296
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11349568 115 + 22224390
CUUUAAUAGGGUACUUCAGACAUGGACAAAGCUUGGCACUGCCCUUUCUUGUUGGAAACGAAGCAUUUCUAUGCUUACCAAUCAAUAAAAAUGUUAGAAAUAUUUAAAUUCAUUU
.((((((((((((.((((....))))....((...))..)))))....(((((((.....((((((....)))))).....)))))))...)))))))................. ( -20.20)
>DroSec_CAF1 10539 114 + 1
CUUUAAUAGGGUAUUUCAGACAUGGACAAAGCUUGGCCAUGCCCUUUGUUGUUGGAAACGAAGCAUUUCUAUGCUUACCAAUCAAUAA-AUUGUCCGAAAUAUUUAAAUUCAUUU
........(((((((((.((((..(((((((...(((...))))))))))(((((.....((((((....)))))).)))))......-..)))).))))))))).......... ( -28.10)
>DroYak_CAF1 14635 107 + 1
CUUUAAUAAGGUAUUUCAGACAUGGGCAAGGGUUGGCAAUGUCCCUUGUUGUUGGAAACGACACAUUUCUUUGCUUACCAAUUAUUAAAACUGUUAGAAACA----AAUGU----
.((((((((((((....(((.(((((((((((..........))))))))((((....)))).))).))).....))))..)))))))).............----.....---- ( -27.50)
>consensus
CUUUAAUAGGGUAUUUCAGACAUGGACAAAGCUUGGCAAUGCCCUUUGUUGUUGGAAACGAAGCAUUUCUAUGCUUACCAAUCAAUAAAAAUGUUAGAAAUAUUUAAAUUCAUUU
........(((((((((.((((..(((((((...(((...))))))))))(((((.....((((((....)))))).))))).........)))).))))))))).......... (-17.94 = -19.83 +   1.90)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,349,568 – 11,349,683
Length 115
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 82.32
Mean single sequence MFE -25.10
Consensus MFE -16.09
Energy contribution -16.43
Covariance contribution 0.34
Combinations/Pair 1.12
Mean z-score -1.99
Structure conservation index 0.64
SVM decision value 0.20
SVM RNA-class probability 0.628747
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11349568 115 - 22224390
AAAUGAAUUUAAAUAUUUCUAACAUUUUUAUUGAUUGGUAAGCAUAGAAAUGCUUCGUUUCCAACAAGAAAGGGCAGUGCCAAGCUUUGUCCAUGUCUGAAGUACCCUAUUAAAG
.............((((((..((((.....(((.((((.((((((....)))))).....)))))))....((((((.((...)).))))))))))..))))))........... ( -24.20)
>DroSec_CAF1 10539 114 - 1
AAAUGAAUUUAAAUAUUUCGGACAAU-UUAUUGAUUGGUAAGCAUAGAAAUGCUUCGUUUCCAACAACAAAGGGCAUGGCCAAGCUUUGUCCAUGUCUGAAAUACCCUAUUAAAG
.............(((((((((((.(-((.(((.((((.((((((....)))))).....))))))).)))(((((.(((...))).))))).)))))))))))........... ( -31.40)
>DroYak_CAF1 14635 107 - 1
----ACAUU----UGUUUCUAACAGUUUUAAUAAUUGGUAAGCAAAGAAAUGUGUCGUUUCCAACAACAAGGGACAUUGCCAACCCUUGCCCAUGUCUGAAAUACCUUAUUAAAG
----(((((----(.(((((..(((((.....)))))...)).))).))))))...(((((..(((.((((((..........))))))....)))..)))))............ ( -19.70)
>consensus
AAAUGAAUUUAAAUAUUUCUAACAAUUUUAUUGAUUGGUAAGCAUAGAAAUGCUUCGUUUCCAACAACAAAGGGCAUUGCCAAGCUUUGUCCAUGUCUGAAAUACCCUAUUAAAG
.............((((((..(((..........((((.((((((....)))))).....)))).......(((((..(.....)..))))).)))..))))))........... (-16.09 = -16.43 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:37 2006