Locus 4067

Sequence ID X_DroMel_CAF1
Location 10,765,511 – 10,765,617
Length 106
Max. P 0.849991
window6685 window6686 window6687

overview

Window 5

Location 10,765,511 – 10,765,601
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 91.41
Mean single sequence MFE -36.83
Consensus MFE -30.90
Energy contribution -31.98
Covariance contribution 1.09
Combinations/Pair 1.11
Mean z-score -2.06
Structure conservation index 0.84
SVM decision value 0.63
SVM RNA-class probability 0.804368
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10765511 90 + 22224390
UGACCCGCGCUCGAAUAGUCGAUGCCAGCGGCGGUCAUUGUCGAGCGCCGCCAGUGUCAACUUGUCGAAAUGUCAGCGACUUCAGUGCAU
......(((((.(((.(((.(((((..((((((.((......)).))))))..))))).))).((((.........)))))))))))).. ( -34.00)
>DroGri_CAF1 14202 90 + 1
UGACCCGGGCUGGAAUAGUCGCUGCCAGCGGCGGUCAUUGUCGAGCGCCGCCAGUGUCAACGCGUCGAGUUGUCAGCGACUUCAGUUCAU
......(((((((...((((((((.((((((((.((......)).))))))..(((....))).......)).))))))))))))))).. ( -39.80)
>DroWil_CAF1 9905 90 + 1
UGACCCGCAAUGGAAUAGUCGUUGCCAGCGGCGGUCAUUGUUGAGCGCCGCCAGUGUCAACGUGUCGAAUUGUCAGCAACUUCAGUGCAU
((((.((((((((.....)))))))..((((((.(((....))).))))))..).))))..(..(.((((((....))).))).)..).. ( -31.80)
>DroYak_CAF1 14635 90 + 1
UGACCCGCGCUCGAAUAGUCGCUGCCAGCGGCGGUCAUUGUCGAGCGCCGCCAGUGUCAACUAGUUGAAAUGUCAGCGACUUCAGUGCAU
......(((((.((..((((((((.((((((((.((......)).)))))).....((((....))))..)).))))))))))))))).. ( -39.90)
>DroMoj_CAF1 14422 90 + 1
UGACCCGGGCUGGAAUAGUCGCUGCCAGCGGCGGUGAUUGUUGAGCGCCGCCAAUGUCAACGCGUCGAGUUGUCAGCGACUUCAGUGCAC
......(.(((((...((((((((.(((((((((((.........))))))).((((....))))...)))).))))))))))))).).. ( -38.70)
>DroAna_CAF1 23406 90 + 1
UGACCCGCGAUGGAAUAGUCGCUGCCAGCGGCGGUCAUUGUCGAGCGCCGCCAGUGUCAACGUGUCGAGUUGUCAGCGACUUCAGUCCAU
.........(((((..(((((((((..((((((.((......)).))))))..))(.((((.......)))).))))))))....))))) ( -36.80)
>consensus
UGACCCGCGCUGGAAUAGUCGCUGCCAGCGGCGGUCAUUGUCGAGCGCCGCCAGUGUCAACGUGUCGAAUUGUCAGCGACUUCAGUGCAU
......(((((((...((((((((.((((((((.((......)).)))))).....((........))..)).))))))))))))))).. (-30.90 = -31.98 +   1.09)

alignment

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secondary structure

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dotplot

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Window 6

Location 10,765,511 – 10,765,601
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 91.41
Mean single sequence MFE -33.25
Consensus MFE -29.39
Energy contribution -29.25
Covariance contribution -0.14
Combinations/Pair 1.18
Mean z-score -1.64
Structure conservation index 0.88
SVM decision value 0.77
SVM RNA-class probability 0.845493
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10765511 90 - 22224390
AUGCACUGAAGUCGCUGACAUUUCGACAAGUUGACACUGGCGGCGCUCGACAAUGACCGCCGCUGGCAUCGACUAUUCGAGCGCGGGUCA
.(((.(((((((((.........)))).((((((..(..((((((.((......)).))))))..)..)))))).))).)).)))..... ( -32.90)
>DroGri_CAF1 14202 90 - 1
AUGAACUGAAGUCGCUGACAACUCGACGCGUUGACACUGGCGGCGCUCGACAAUGACCGCCGCUGGCAGCGACUAUUCCAGCCCGGGUCA
.(((.....((((((((.((((.......))))...(..((((((.((......)).))))))..)))))))))..(((.....)))))) ( -34.40)
>DroWil_CAF1 9905 90 - 1
AUGCACUGAAGUUGCUGACAAUUCGACACGUUGACACUGGCGGCGCUCAACAAUGACCGCCGCUGGCAACGACUAUUCCAUUGCGGGUCA
.((((.((..((((.........)))).(((((...(..((((((.(((....))).))))))..)))))).......)).))))..... ( -28.80)
>DroYak_CAF1 14635 90 - 1
AUGCACUGAAGUCGCUGACAUUUCAACUAGUUGACACUGGCGGCGCUCGACAAUGACCGCCGCUGGCAGCGACUAUUCGAGCGCGGGUCA
.(((.((((((((((((.....((((....))))..(..((((((.((......)).))))))..)))))))))..)).)).)))..... ( -36.70)
>DroMoj_CAF1 14422 90 - 1
GUGCACUGAAGUCGCUGACAACUCGACGCGUUGACAUUGGCGGCGCUCAACAAUCACCGCCGCUGGCAGCGACUAUUCCAGCCCGGGUCA
.........((((((((.((((.......))))...(..((((((............))))))..)))))))))..(((.....)))... ( -29.90)
>DroAna_CAF1 23406 90 - 1
AUGGACUGAAGUCGCUGACAACUCGACACGUUGACACUGGCGGCGCUCGACAAUGACCGCCGCUGGCAGCGACUAUUCCAUCGCGGGUCA
(((((....((((((((.((((.......))))...(..((((((.((......)).))))))..)))))))))..)))))......... ( -36.80)
>consensus
AUGCACUGAAGUCGCUGACAACUCGACACGUUGACACUGGCGGCGCUCGACAAUGACCGCCGCUGGCAGCGACUAUUCCAGCGCGGGUCA
.........((((((((.....((((....))))..(..((((((.(((....))).))))))..)))))))))................ (-29.39 = -29.25 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 7

Location 10,765,521 – 10,765,617
Length 96
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.49
Mean single sequence MFE -35.72
Consensus MFE -29.51
Energy contribution -29.35
Covariance contribution -0.16
Combinations/Pair 1.23
Mean z-score -1.53
Structure conservation index 0.83
SVM decision value 0.78
SVM RNA-class probability 0.849991
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10765521 96 - 22224390
UGCCACCG------------------------CUACCCAAAUGCACUGAAGUCGCUGACAUUUCGACAAGUUGACACUGGCGGCGCUCGACAAUGACCGCCGCUGGCAUCGACUAUUCGA
........------------------------......(((((((.((....)).)).)))))(((..((((((..(..((((((.((......)).))))))..)..))))))..))). ( -29.60)
>DroPse_CAF1 30109 108 - 1
CGCCGCCG--------UUCA----CUCCGCCGCGACCCAAAUGCACUGAAGUCGCUGACAGCUCGACGCGUUGACACUGGCGGCGCUCGACGAUGACCGCCGCUGGCAGCGACUAUUCAA
(((.((.(--------....----..).)).)))............(((((((((((.((((.......))))...(..((((((.((......)).))))))..)))))))))..))). ( -39.40)
>DroGri_CAF1 14212 99 - 1
UGGCGCCA---------------------CCGCCGCCCAAAUGAACUGAAGUCGCUGACAACUCGACGCGUUGACACUGGCGGCGCUCGACAAUGACCGCCGCUGGCAGCGACUAUUCCA
.((((...---------------------.))))...............((((((((.((((.......))))...(..((((((.((......)).))))))..)))))))))...... ( -39.10)
>DroWil_CAF1 9915 120 - 1
GGCCGCCUGCACCACCUGCACCACCACCUCCGCUACCCAAAUGCACUGAAGUUGCUGACAAUUCGACACGUUGACACUGGCGGCGCUCAACAAUGACCGCCGCUGGCAACGACUAUUCCA
(((.((.((((.....))))...........((.........))......)).)))............(((((...(..((((((.(((....))).))))))..))))))......... ( -30.00)
>DroMoj_CAF1 14432 99 - 1
GGCCAGCA---------------------CCACCGCCCAAGUGCACUGAAGUCGCUGACAACUCGACGCGUUGACAUUGGCGGCGCUCAACAAUCACCGCCGCUGGCAGCGACUAUUCCA
((...(((---------------------(..........)))).....((((((((.((((.......))))...(..((((((............))))))..)))))))))...)). ( -33.90)
>DroAna_CAF1 23416 108 - 1
GUCCCCCG--------CCCA----GUCCUCCACUCCCCAGAUGGACUGAAGUCGCUGACAACUCGACACGUUGACACUGGCGGCGCUCGACAAUGACCGCCGCUGGCAGCGACUAUUCCA
........--------..((----((((..(........)..)))))).((((((((.((((.......))))...(..((((((.((......)).))))))..)))))))))...... ( -42.30)
>consensus
GGCCGCCG_____________________CCGCUACCCAAAUGCACUGAAGUCGCUGACAACUCGACACGUUGACACUGGCGGCGCUCGACAAUGACCGCCGCUGGCAGCGACUAUUCCA
.................................................((((((((.((((.......))))...(..((((((.(((....))).))))))..)))))))))...... (-29.51 = -29.35 +  -0.16)

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 11:15:35 2006