Locus 986

Sequence ID 2R_DroMel_CAF1
Location 4,139,135 – 4,139,254
Length 119
Max. P 0.740500
window1751 window1752

overview

Window 1

Location 4,139,135 – 4,139,254
Length 119
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 90.48
Mean single sequence MFE -50.90
Consensus MFE -39.16
Energy contribution -40.48
Covariance contribution 1.31
Combinations/Pair 1.16
Mean z-score -1.87
Structure conservation index 0.77
SVM decision value 0.45
SVM RNA-class probability 0.740500
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4139135 119 + 20766785
CCUCGGGCAGGUAGGGCUGUGCGAUGGAUUGGCCGGCAUUUGCCAACCAGGUCCUCCGCAUCGCGUUCCUCUCAUCGGCAUUGUGCGGUGCGCUUAGCACCAACACCAUGAGGAAGAGG
(((((((.(((.((.((.(((((..(((((((..(((....)))..))).))))..))))).)).)))))))).((..(((.(((.(((((.....)))))..))).)))..)).)))) ( -51.80)
>DroSec_CAF1 4262 119 + 1
CCUCGGGCAGGUAGGGCUGUGUGAGGGAUUGGCCGGCAUUUGCCAGCCAGGUGCUCCGCAUCGCGUUCCUCUCAUCGGAAUUGUGCGGUGCGCUGAGCACCAACACCAUAAGGAAGAGU
(((((.((((......)))).)))))...((((.(((....))).))))((((((((((((((((((((.......)))))...))))))))..)))))))....((....))...... ( -57.20)
>DroEre_CAF1 4254 119 + 1
CCUCGGGAAGAUAGGGCUGUGCGAGGGAUUGGCCCGCACUCGCCAGCCAGGUGCUCCGCAUCGCUUGCCUCUCCUCUGCAUUGUGUGGUGCGCUGAGCACCAACACCAUAAGGAAGAGG
((((..........(((((.(((((((......))...)))))))))).(((((((((((((((.(((.........)))....))))))))..)))))))....((....))..)))) ( -50.70)
>DroYak_CAF1 4156 119 + 1
CCUCGGGAAAAUAGGGCUGUGCAAGAGAUUGGCCCGCAUUUGCCAGCCAGGUGCUCCGCAUCGCGUUCCUCUCAUCUGCAUUGUGUGGUGCGCUGAGCACCAACACCAUAAGGAAGAGG
((((((((....((.((.((((..(((.(((((..((....))..)))))...))).)))).)).))..)))).(((..((.(((((((((.....))))).)))).))..))).)))) ( -43.90)
>consensus
CCUCGGGAAGAUAGGGCUGUGCGAGGGAUUGGCCCGCAUUUGCCAGCCAGGUGCUCCGCAUCGCGUUCCUCUCAUCGGCAUUGUGCGGUGCGCUGAGCACCAACACCAUAAGGAAGAGG
(((..((.......(((((.(((((((.....)))....))))))))).((((((((((((((((((((.......)))))...))))))))..)))))))....))...)))...... (-39.16 = -40.48 +   1.31) 

alignment

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secondary structure

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dotplot

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Window 2

Location 4,139,135 – 4,139,254
Length 119
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 90.48
Mean single sequence MFE -47.25
Consensus MFE -38.35
Energy contribution -38.60
Covariance contribution 0.25
Combinations/Pair 1.14
Mean z-score -1.71
Structure conservation index 0.81
SVM decision value 0.44
SVM RNA-class probability 0.739172
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4139135 119 - 20766785
CCUCUUCCUCAUGGUGUUGGUGCUAAGCGCACCGCACAAUGCCGAUGAGAGGAACGCGAUGCGGAGGACCUGGUUGGCAAAUGCCGGCCAAUCCAUCGCACAGCCCUACCUGCCCGAGG
((((...((((((((((((((((.....)))))....)))))).)))))(((...((..((((..(((..((((((((....)))))))).)))..))))..))....)))....)))) ( -52.10)
>DroSec_CAF1 4262 119 - 1
ACUCUUCCUUAUGGUGUUGGUGCUCAGCGCACCGCACAAUUCCGAUGAGAGGAACGCGAUGCGGAGCACCUGGCUGGCAAAUGCCGGCCAAUCCCUCACACAGCCCUACCUGCCCGAGG
.(((.........((((.(((((((..((((.(((....((((.......)))).))).)))))))))))((((((((....)))))))).......)))).((.......))..))). ( -47.00)
>DroEre_CAF1 4254 119 - 1
CCUCUUCCUUAUGGUGUUGGUGCUCAGCGCACCACACAAUGCAGAGGAGAGGCAAGCGAUGCGGAGCACCUGGCUGGCGAGUGCGGGCCAAUCCCUCGCACAGCCCUAUCUUCCCGAGG
((((.........((((.(((((.....)))))))))......(((((..(((..((((.(.(((.....(((((.((....)).))))).))))))))...)))...)))))..)))) ( -47.20)
>DroYak_CAF1 4156 119 - 1
CCUCUUCCUUAUGGUGUUGGUGCUCAGCGCACCACACAAUGCAGAUGAGAGGAACGCGAUGCGGAGCACCUGGCUGGCAAAUGCGGGCCAAUCUCUUGCACAGCCCUAUUUUCCCGAGG
((((((.(((((.((((.(((((.....))))))))).))).))..))))))...((..(((((((....(((((.((....)).)))))..))).))))..))............... ( -42.70)
>consensus
CCUCUUCCUUAUGGUGUUGGUGCUCAGCGCACCACACAAUGCAGAUGAGAGGAACGCGAUGCGGAGCACCUGGCUGGCAAAUGCCGGCCAAUCCCUCGCACAGCCCUACCUGCCCGAGG
((((((((((...((((.(((((.....)))))))))....(....).)))))).((..((((..(....((((((((....))))))))...)..))))..))...........)))) (-38.35 = -38.60 +   0.25) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:26 2006