Locus 984

Sequence ID 3L_DroMel_CAF1
Location 2,932,192 – 2,932,320
Length 128
Max. P 0.942874
window1519 window1520 window1521

overview

Window 9

Location 2,932,192 – 2,932,282
Length 90
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 89.39
Mean single sequence MFE -39.08
Consensus MFE -31.26
Energy contribution -31.48
Covariance contribution 0.22
Combinations/Pair 1.08
Mean z-score -2.11
Structure conservation index 0.80
SVM decision value 0.03
SVM RNA-class probability 0.551138
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2932192 90 + 23771897
GAACGGAAAUGGAGGUGCAACCGGAGG---AGGAGUGGCCAACAACCUGGCCAUGGUGGCCGCAUCAAGUGCGGCAACAGCCGUGGCCACCGC
...(((...((..(((.((.((.....---.))..)))))..))...((((((((((.(((((((...)))))))....))))))))))))). ( -40.80)
>DroSec_CAF1 168243 93 + 1
GAACGGAAAUGGAGGAGCAAUCGGAGGAGGAGGAGUGGCCAACAACCUGGCCAUGGUGGCCGCAUCCAGUGCGGCAACAGCCGUGGCCACCGC
...(((...((..((.((..((.......))...))..))..))...((((((((((.(((((((...)))))))....))))))))))))). ( -38.30)
>DroSim_CAF1 154422 93 + 1
GAACGGAAAUGGAGGUGCAACCGGAGGAGGAGGAGUGGCCAACAACCUGGCCAUGGUGGCCGCAUCCAGUGCGGCAACAGCCGUGGCCACCGC
...(((......((((....((......)).((.....))....))))(((((((((.(((((((...)))))))....))))))))).))). ( -40.70)
>DroEre_CAF1 176131 90 + 1
CAACGGAAAUGGAGGUGCAACCGGAGG---AGGAGUGGCCAACAACCUGGCCAUGGUGGCCGCAUCCAGUGCGGCAACAGCCGUGGCCACAGC
....((...((..(((.((.((.....---.))..)))))..)).))((((((((((.(((((((...)))))))....)))))))))).... ( -38.00)
>DroYak_CAF1 177499 93 + 1
AAACGGAAAUGGAGGUGCGACCGGAGGAGGAGGAGUGGCCAACAACCUGGCCAUGGUGGCCGCAUCCAGUGCGGCAACAGCCGUGGCCACAGC
............((((....((......)).((.....))....))))(((((((((.(((((((...)))))))....)))))))))..... ( -37.10)
>DroAna_CAF1 154928 87 + 1
GAG---CAAUGGAACCGGAACCGGAAG---CGGAGUGGCCAACAACCUGGCCAUGGUGGCGGCCUCGAGUGCGGCUACCGCUGUGGCCACCGC
...---........(((....)))..(---(((.((.....))....((((((((((((..(((........)))..)))))))))))))))) ( -39.60)
>consensus
GAACGGAAAUGGAGGUGCAACCGGAGG___AGGAGUGGCCAACAACCUGGCCAUGGUGGCCGCAUCCAGUGCGGCAACAGCCGUGGCCACCGC
.........(((........)))...........(((((((......)))))))(((((((((.....))(((((....)))))))))))).. (-31.26 = -31.48 +   0.22)

alignment

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secondary structure

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dotplot

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Window 0

Location 2,932,212 – 2,932,320
Length 108
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 86.31
Mean single sequence MFE -51.49
Consensus MFE -42.03
Energy contribution -41.78
Covariance contribution -0.25
Combinations/Pair 1.16
Mean z-score -3.13
Structure conservation index 0.82
SVM decision value 1.33
SVM RNA-class probability 0.942874
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2932212 108 + 23771897
CCGGAGG---AGGAGUGGCCAACAACCUGGCCAUGGUGGCCGCAUCAAGUGCGGCAACAGCCGUGGCCACCGCCACCAAUGCCAGUAAUGCCAGCAAUACCGC--CCCCGGGU
((((.((---.((.(((((........((((((((((.(((((((...)))))))....))))))))))..)))))...(((((....))...)))...)).)--).)))).. ( -52.30)
>DroSec_CAF1 168263 111 + 1
UCGGAGGAGGAGGAGUGGCCAACAACCUGGCCAUGGUGGCCGCAUCCAGUGCGGCAACAGCCGUGGCCACCGCCACCAAUGCCAGUAAUGCCAUCAAUACCGC--CCCCGGGU
((((.((.((.((.(((((((......)))))))(((((((((((...))))(((....)))..)))))))....)).(((.((....)).))).....)).)--).)))).. ( -49.80)
>DroSim_CAF1 154442 111 + 1
CCGGAGGAGGAGGAGUGGCCAACAACCUGGCCAUGGUGGCCGCAUCCAGUGCGGCAACAGCCGUGGCCACCGCCACCAAUGCCAGUAAUGCCAGCAAUACCGC--CCCCGGGU
((((.((.((.((.(((((((......)))))))(((((((((((...))))(((....)))..)))))))....))..(((((....))...)))...)).)--).)))).. ( -52.80)
>DroEre_CAF1 176151 108 + 1
CCGGAGG---AGGAGUGGCCAACAACCUGGCCAUGGUGGCCGCAUCCAGUGCGGCAACAGCCGUGGCCACAGCCACCAAUGCCACCAAUGCCAGUAACACCGC--CCCCGGGU
((((.((---.((.(((((((......)))))))((((((.((((...))))(((....)))(((((....)))))....)))))).............)).)--).)))).. ( -51.50)
>DroYak_CAF1 177519 111 + 1
CCGGAGGAGGAGGAGUGGCCAACAACCUGGCCAUGGUGGCCGCAUCCAGUGCGGCAACAGCCGUGGCCACAGCCACCAAUGCCAGUAAUGCCAGUAACACCGC--UCCCGGAA
((((..(.((..(.(((((........((((((((((.(((((((...)))))))....))))))))))..))))))..((.((....)).))......)).)--..)))).. ( -50.30)
>DroAna_CAF1 154945 97 + 1
CCGGAAG---CGGAGUGGCCAACAACCUGGCCAUGGUGGCGGCCUCGAGUGCGGCUACCGCUGUGGCCACCGCCA------------GUGGCAGCAACUCCGCAGCUCCAGG-
..(((.(---((((((.((((......((((((((((((..(((........)))..))))))))))))......------------.))))....)))))))...)))...- ( -52.22)
>consensus
CCGGAGG___AGGAGUGGCCAACAACCUGGCCAUGGUGGCCGCAUCCAGUGCGGCAACAGCCGUGGCCACCGCCACCAAUGCCAGUAAUGCCAGCAACACCGC__CCCCGGGU
((((.((....((.(((((........((((((((((.(((((((...)))))))....))))))))))..)))))............((....))...))....)))))).. (-42.03 = -41.78 +  -0.25)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,932,212 – 2,932,320
Length 108
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 86.31
Mean single sequence MFE -57.87
Consensus MFE -41.14
Energy contribution -43.58
Covariance contribution 2.45
Combinations/Pair 1.09
Mean z-score -3.35
Structure conservation index 0.71
SVM decision value 0.38
SVM RNA-class probability 0.714984
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2932212 108 - 23771897
ACCCGGGG--GCGGUAUUGCUGGCAUUACUGGCAUUGGUGGCGGUGGCCACGGCUGUUGCCGCACUUGAUGCGGCCACCAUGGCCAGGUUGUUGGCCACUCCU---CCUCCGG
..((((((--(.((....((..(((...(((((..(((((((((..((....))..))..((((.....)))))))))))..)))))..)))..))....)).---))))))) ( -59.60)
>DroSec_CAF1 168263 111 - 1
ACCCGGGG--GCGGUAUUGAUGGCAUUACUGGCAUUGGUGGCGGUGGCCACGGCUGUUGCCGCACUGGAUGCGGCCACCAUGGCCAGGUUGUUGGCCACUCCUCCUCCUCCGA
...(((((--(.((....(.((((....(((((..(((((((.((..(((((((....))))...)))..)).)))))))..))))).......)))))....)).)))))). ( -57.30)
>DroSim_CAF1 154442 111 - 1
ACCCGGGG--GCGGUAUUGCUGGCAUUACUGGCAUUGGUGGCGGUGGCCACGGCUGUUGCCGCACUGGAUGCGGCCACCAUGGCCAGGUUGUUGGCCACUCCUCCUCCUCCGG
..((((((--(.((....((..(((...(((((..(((((((.((..(((((((....))))...)))..)).)))))))..)))))..)))..)).......)).))))))) ( -62.00)
>DroEre_CAF1 176151 108 - 1
ACCCGGGG--GCGGUGUUACUGGCAUUGGUGGCAUUGGUGGCUGUGGCCACGGCUGUUGCCGCACUGGAUGCGGCCACCAUGGCCAGGUUGUUGGCCACUCCU---CCUCCGG
..((((((--(.((.((..(..(((....((((..((((((((((..(((((((....))))...)))..))))))))))..))))...)))..)..)).)).---))))))) ( -60.40)
>DroYak_CAF1 177519 111 - 1
UUCCGGGA--GCGGUGUUACUGGCAUUACUGGCAUUGGUGGCUGUGGCCACGGCUGUUGCCGCACUGGAUGCGGCCACCAUGGCCAGGUUGUUGGCCACUCCUCCUCCUCCGG
..((((((--(.((.((..(..(((...(((((..((((((((((..(((((((....))))...)))..))))))))))..)))))..)))..)..)).))..)))..)))) ( -57.40)
>DroAna_CAF1 154945 97 - 1
-CCUGGAGCUGCGGAGUUGCUGCCAC------------UGGCGGUGGCCACAGCGGUAGCCGCACUCGAGGCCGCCACCAUGGCCAGGUUGUUGGCCACUCCG---CUUCCGG
-.((((((..(((((((.(((((((.------------(((.(((((((.(.((((...))))....).))))))).))))))).........))).))))))---))))))) ( -50.50)
>consensus
ACCCGGGG__GCGGUAUUGCUGGCAUUACUGGCAUUGGUGGCGGUGGCCACGGCUGUUGCCGCACUGGAUGCGGCCACCAUGGCCAGGUUGUUGGCCACUCCU___CCUCCGG
..((((((....((....(((..((...(((((..(((((((.((..(((((((....))))...)))..)).)))))))..)))))..))..)))....)).....)))))) (-41.14 = -43.58 +   2.45)

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 09:56:07 2006