Locus 7859

Sequence ID X_DroMel_CAF1
Location 19,579,977 – 19,580,085
Length 108
Max. P 0.662296
window12891 window12892

overview

Window 1

Location 19,579,977 – 19,580,085
Length 108
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 78.77
Mean single sequence MFE -33.02
Consensus MFE -19.31
Energy contribution -20.53
Covariance contribution 1.23
Combinations/Pair 1.28
Mean z-score -1.71
Structure conservation index 0.58
SVM decision value 0.27
SVM RNA-class probability 0.662296
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19579977 108 + 22224390
GAACGCCAGUGUUGGACAACAUGUGUGGUGGGCCUGCGAUCAGGUGGCAGCCCCAAGGGAAACUGAUUGCUCAGCUCCGCCCGAAACGAAUCGAAACAAUAACACAAA--
........(((((....)))))(((((((((((..((((((((.......(((...)))...))))))))...)).)))))(((......)))........))))...-- ( -32.90)
>DroSec_CAF1 10050 108 + 1
GAACGUUAGUGUUGGGCAACACGGGUGGUGCGCCUGCGAUCAGGUGGCAGCCCCAAGGGAAACUGAUUGCUCAGCUCCGCCCGAAACGAAUCGAAACAAUAACACAAA--
........(((((((....).(((((((.((....((((((((.......(((...)))...))))))))...)).)))))))................))))))...-- ( -40.30)
>DroSim_CAF1 8303 108 + 1
GAACGCCAGUGUUGGGCAACACGGGUGGUGCGCCUGCGAUCAGGUGGCAGCCCCAAGGGAAACUGAUUGCUCAGCUCCGCCCGAAACGAAUCGAAACAAUAACACAAA--
........(((((((....).(((((((.((....((((((((.......(((...)))...))))))))...)).)))))))................))))))...-- ( -40.30)
>DroEre_CAF1 9980 108 + 1
GAAUGCCAGUGUUGGGCAACAUCGGCGGUGGGUCUGCGAUCAGGUGGCAGCCCCAAGGGAAACUGAUUGUUCAGCUCCGCCCGAAACGAAACGAAACAAUAACACAAA--
........(((((((....).(((.(((((((.((((.((...)).)))).))))..(((..((((....)))).)))..)))...)))..........))))))...-- ( -33.20)
>DroYak_CAF1 1431 103 + 1
GAAUUCCAGUGUUGAGCAACGCCGGCGGUGGGCCUGCGAUCAGGUGGCAGCCCCAAGGGAAACUGAUUGCUCAGCUCCGCCCGAAAC-----GAAACAAUAACACAAA--
........((((((.((.......))(((((((..((((((((.......(((...)))...))))))))...)).)))))......-----.......))))))...-- ( -32.40)
>DroPer_CAF1 13602 86 + 1
CAUCGUCAGUGUUGGGCAGCGACAGAGGAAAGUGUCUGGAAAGGUGGCAACCCAGAGAGAAAUUA-UUG-----------------------GAAACAAUAACAUAAAAG
........((((((((..((.((...(((.....)))......)).))..))))).......(((-(((-----------------------....)))))))))..... ( -19.00)
>consensus
GAACGCCAGUGUUGGGCAACACCGGUGGUGGGCCUGCGAUCAGGUGGCAGCCCCAAGGGAAACUGAUUGCUCAGCUCCGCCCGAAACGAAUCGAAACAAUAACACAAA__
........(((((((....)...(((((...((..((((((((.......(((...)))...))))))))...)).)))))..................))))))..... (-19.31 = -20.53 +   1.23)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 2

Location 19,579,977 – 19,580,085
Length 108
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 78.77
Mean single sequence MFE -33.05
Consensus MFE -20.84
Energy contribution -21.97
Covariance contribution 1.13
Combinations/Pair 1.26
Mean z-score -1.39
Structure conservation index 0.63
SVM decision value 0.09
SVM RNA-class probability 0.579777
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19579977 108 - 22224390
--UUUGUGUUAUUGUUUCGAUUCGUUUCGGGCGGAGCUGAGCAAUCAGUUUCCCUUGGGGCUGCCACCUGAUCGCAGGCCCACCACACAUGUUGUCCAACACUGGCGUUC
--...(((((........((......))((((((((((((....))))))))...((((.((((.........)))).))))...........)))))))))........ ( -34.70)
>DroSec_CAF1 10050 108 - 1
--UUUGUGUUAUUGUUUCGAUUCGUUUCGGGCGGAGCUGAGCAAUCAGUUUCCCUUGGGGCUGCCACCUGAUCGCAGGCGCACCACCCGUGUUGCCCAACACUAACGUUC
--.....((((.((((..((......))((((((((((((....))))))))....((((.(((..((((....)))).))).).))).....)))))))).)))).... ( -37.90)
>DroSim_CAF1 8303 108 - 1
--UUUGUGUUAUUGUUUCGAUUCGUUUCGGGCGGAGCUGAGCAAUCAGUUUCCCUUGGGGCUGCCACCUGAUCGCAGGCGCACCACCCGUGUUGCCCAACACUGGCGUUC
--...(((((........((......))((((((((((((....))))))))....((((.(((..((((....)))).))).).))).....)))))))))........ ( -37.50)
>DroEre_CAF1 9980 108 - 1
--UUUGUGUUAUUGUUUCGUUUCGUUUCGGGCGGAGCUGAACAAUCAGUUUCCCUUGGGGCUGCCACCUGAUCGCAGACCCACCGCCGAUGUUGCCCAACACUGGCAUUC
--...((((((.((((..((..((((...(((((((((((....)))))).....((((.((((.........)))).)))))))))))))..))..)))).)))))).. ( -35.60)
>DroYak_CAF1 1431 103 - 1
--UUUGUGUUAUUGUUUC-----GUUUCGGGCGGAGCUGAGCAAUCAGUUUCCCUUGGGGCUGCCACCUGAUCGCAGGCCCACCGCCGGCGUUGCUCAACACUGGAAUUC
--...(((((...((..(-----(((...(((((((((((....)))))).....((((.((((.........)))).)))))))))))))..))..)))))........ ( -39.40)
>DroPer_CAF1 13602 86 - 1
CUUUUAUGUUAUUGUUUC-----------------------CAA-UAAUUUCUCUCUGGGUUGCCACCUUUCCAGACACUUUCCUCUGUCGCUGCCCAACACUGACGAUG
.......(((((((....-----------------------)))-)))).......(((((.((..........((((........)))))).)))))............ ( -13.20)
>consensus
__UUUGUGUUAUUGUUUCGAUUCGUUUCGGGCGGAGCUGAGCAAUCAGUUUCCCUUGGGGCUGCCACCUGAUCGCAGGCCCACCACCCGUGUUGCCCAACACUGGCGUUC
......(((((.((((...........((((.((((((((....)))))))).))))((((.((..((((....))))............)).)))))))).)))))... (-20.84 = -21.97 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:18 2006