Locus 2203

Sequence ID X_DroMel_CAF1
Location 5,960,646 – 5,960,806
Length 160
Max. P 0.996881
window3575 window3576 window3577

overview

Window 5

Location 5,960,646 – 5,960,766
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 96.33
Mean single sequence MFE -21.78
Consensus MFE -19.92
Energy contribution -19.98
Covariance contribution 0.06
Combinations/Pair 1.09
Mean z-score -1.79
Structure conservation index 0.91
SVM decision value 1.99
SVM RNA-class probability 0.984937
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5960646 120 + 22224390
CUCUACCUCUGAACUGAAUCCCUCAACCAAAAUGGCCACCAAUAAAUUAAAUAGCACAUAAUUGCCGAACGUCAUUAGUGCCACAAAGUACAAUGCGGCCCAAUGACUUGUCUUUUCCAU
...............................((((..................(((......))).((..((((((.(.(((.((........)).)))).))))))...))....)))) ( -16.50)
>DroGri_CAF1 19170 120 + 1
CUCUACCUCUGAACUGAAUCCCUCAACCAAAAUGGCCACCAAUAAAUUAAACAGCACAUAAUUGCCGAACGUCAUUAGGGCCACAAAGUACAGUGCGGCCCAAUGACUUGUCUUUUCCAU
...............................((((..................(((......))).((..((((((.(((((.((........)).)))))))))))...))....)))) ( -23.00)
>DroWil_CAF1 8749 120 + 1
CUCUACCUCUGAACUGAAUCCCUCAACCAAAAUGGCCACCAAUAAAUUAAAUAGCACAUAAUUGCCGAAUGUCAUUAGGGCCACAAAAUACAAUGCGGCCCAAUGACUUGUCUUUUCCAU
...............................((((..................(((......))).((..((((((.(((((.((........)).)))))))))))...))....)))) ( -23.70)
>DroMoj_CAF1 22381 120 + 1
CUCUACCUCUGAACUGAAUCCCUCAACCAAAAUGGCGACCAAUAAAUUAAACAGCACGUAAUUGCCAAAAGUCAUUAGAGCCACAAAAUACAAUGCGGCCCAAUGACUUGUCUUUUCCAU
..........(((..((...............((((((.......................)))))).((((((((.(.(((.((........)).)))).)))))))).))..)))... ( -20.80)
>DroAna_CAF1 9962 120 + 1
CUCUACCUCUGAACUGAAUCCCUCAACCAAAAUGGCCACCAAUAAAUUAAAUAGCACAUAAUUGCCGAACGUCAUUAGGGCCACAAAGUACAAUGCGGCCCAAUGACUUGUUUUUUCCAU
...............................((((.....(((((........(((......))).....((((((.(((((.((........)).))))))))))))))))....)))) ( -23.00)
>DroPer_CAF1 25339 120 + 1
CUCUACCUCUGAACUGAAUCCCUCAACCAAAAUGGCCACCAAUAAAUUAAAUAGCACAUAAUUGCCGAAUGUCAUUAGGGCCACAAAGUACAAUGCGGCCCAAUGACUAGUCUUUUCCAU
...............................((((..................(((......))).((..((((((.(((((.((........)).)))))))))))...))....)))) ( -23.70)
>consensus
CUCUACCUCUGAACUGAAUCCCUCAACCAAAAUGGCCACCAAUAAAUUAAAUAGCACAUAAUUGCCGAACGUCAUUAGGGCCACAAAGUACAAUGCGGCCCAAUGACUUGUCUUUUCCAU
..........(((..((...............((((...........................))))...((((((.(((((.((........)).)))))))))))...))..)))... (-19.92 = -19.98 +   0.06)

alignment

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secondary structure

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dotplot

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Window 6

Location 5,960,646 – 5,960,766
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 96.33
Mean single sequence MFE -36.38
Consensus MFE -32.94
Energy contribution -32.97
Covariance contribution 0.03
Combinations/Pair 1.09
Mean z-score -2.30
Structure conservation index 0.91
SVM decision value 2.76
SVM RNA-class probability 0.996881
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5960646 120 - 22224390
AUGGAAAAGACAAGUCAUUGGGCCGCAUUGUACUUUGUGGCACUAAUGACGUUCGGCAAUUAUGUGCUAUUUAAUUUAUUGGUGGCCAUUUUGGUUGAGGGAUUCAGUUCAGAGGUAGAG
...(((..((...((((((((((((((........)))))).)))))))).((((((....(((.((((((.........)))))))))....))))))....))..))).......... ( -35.80)
>DroGri_CAF1 19170 120 - 1
AUGGAAAAGACAAGUCAUUGGGCCGCACUGUACUUUGUGGCCCUAAUGACGUUCGGCAAUUAUGUGCUGUUUAAUUUAUUGGUGGCCAUUUUGGUUGAGGGAUUCAGUUCAGAGGUAGAG
...(((..((...((((((((((((((........)))))))).)))))).((((((....(((.((..((.........))..)))))....))))))....))..))).......... ( -35.80)
>DroWil_CAF1 8749 120 - 1
AUGGAAAAGACAAGUCAUUGGGCCGCAUUGUAUUUUGUGGCCCUAAUGACAUUCGGCAAUUAUGUGCUAUUUAAUUUAUUGGUGGCCAUUUUGGUUGAGGGAUUCAGUUCAGAGGUAGAG
...(((..((...((((((((((((((........)))))))).)))))).((((((....(((.((((((.........)))))))))....))))))....))..))).......... ( -38.20)
>DroMoj_CAF1 22381 120 - 1
AUGGAAAAGACAAGUCAUUGGGCCGCAUUGUAUUUUGUGGCUCUAAUGACUUUUGGCAAUUACGUGCUGUUUAAUUUAUUGGUCGCCAUUUUGGUUGAGGGAUUCAGUUCAGAGGUAGAG
((((....(((((((((((((((((((........)))))).))))))))))..((((......)))).............))).)))).....(((((........)))))........ ( -32.90)
>DroAna_CAF1 9962 120 - 1
AUGGAAAAAACAAGUCAUUGGGCCGCAUUGUACUUUGUGGCCCUAAUGACGUUCGGCAAUUAUGUGCUAUUUAAUUUAUUGGUGGCCAUUUUGGUUGAGGGAUUCAGUUCAGAGGUAGAG
.((((........((((((((((((((........)))))))).)))))).((((((....(((.((((((.........)))))))))....))))))...)))).............. ( -37.40)
>DroPer_CAF1 25339 120 - 1
AUGGAAAAGACUAGUCAUUGGGCCGCAUUGUACUUUGUGGCCCUAAUGACAUUCGGCAAUUAUGUGCUAUUUAAUUUAUUGGUGGCCAUUUUGGUUGAGGGAUUCAGUUCAGAGGUAGAG
...(((..((...((((((((((((((........)))))))).)))))).((((((....(((.((((((.........)))))))))....))))))....))..))).......... ( -38.20)
>consensus
AUGGAAAAGACAAGUCAUUGGGCCGCAUUGUACUUUGUGGCCCUAAUGACGUUCGGCAAUUAUGUGCUAUUUAAUUUAUUGGUGGCCAUUUUGGUUGAGGGAUUCAGUUCAGAGGUAGAG
.((((........((((((((((((((........)))))))).)))))).((((((....(((.((((((.........)))))))))....))))))...)))).............. (-32.94 = -32.97 +   0.03)

alignment

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secondary structure

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dotplot

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Window 7

Location 5,960,686 – 5,960,806
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.39
Mean single sequence MFE -37.98
Consensus MFE -30.79
Energy contribution -30.98
Covariance contribution 0.19
Combinations/Pair 1.09
Mean z-score -2.91
Structure conservation index 0.81
SVM decision value 1.12
SVM RNA-class probability 0.917675
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5960686 120 - 22224390
ACUGACGCAAGAGGAUUGGAACGUCGUCCUGUUCAACGGAAUGGAAAAGACAAGUCAUUGGGCCGCAUUGUACUUUGUGGCACUAAUGACGUUCGGCAAUUAUGUGCUAUUUAAUUUAUU
......(((....((((((((((((.(((.((((....)))))))...)))..((((((((((((((........)))))).))))))))))))..)))))...)))............. ( -41.20)
>DroVir_CAF1 20378 120 - 1
UCUGACGCAAGAGGAUUGGAACGUGGUUCUAUUCAAUGGCAUGGAAAAGACAAGUCAUUGGGCCGCAUUGUACUUUGUGGCUCUAAUGACGUUCGGCAAUUAUGUGCUAUUUAAUUUAUU
.....(....)..((.((((((...)))))).))(((((((((.....((...((((((((((((((........)))))).))))))))..))........)))))))))......... ( -35.82)
>DroGri_CAF1 19210 120 - 1
ACUGACGCAAGAGGAUUGGAACGUGGUUCUAUUCAAUGGCAUGGAAAAGACAAGUCAUUGGGCCGCACUGUACUUUGUGGCCCUAAUGACGUUCGGCAAUUAUGUGCUGUUUAAUUUAUU
...((((((....(((((((((((..((((((.(....).))))))...))..((((((((((((((........)))))))).))))))))))..)))))...))).)))......... ( -37.60)
>DroWil_CAF1 8789 120 - 1
ACUCACACAAGAGGAUUGGAACGUCGUCUUGUUCAACGGCAUGGAAAAGACAAGUCAUUGGGCCGCAUUGUAUUUUGUGGCCCUAAUGACAUUCGGCAAUUAUGUGCUAUUUAAUUUAUU
.(((......)))(((((((.....(((((.((((......)))).)))))..((((((((((((((........)))))))).))))))....((((......)))).))))))).... ( -38.50)
>DroMoj_CAF1 22421 120 - 1
ACUAACGCAAGAGGAUUGGAACGUUGUCCUAUUCAAUGGCAUGGAAAAGACAAGUCAUUGGGCCGCAUUGUAUUUUGUGGCUCUAAUGACUUUUGGCAAUUACGUGCUGUUUAAUUUAUU
.....(....).((((.(((......))).))))(((((((((.......(((((((((((((((((........)))))).)))))))))..)).......)))))))))......... ( -38.04)
>DroAna_CAF1 10002 120 - 1
UCUAACACAAGAGGAUUGGAACGUCGUACUCUUCAAUGGAAUGGAAAAAACAAGUCAUUGGGCCGCAUUGUACUUUGUGGCCCUAAUGACGUUCGGCAAUUAUGUGCUAUUUAAUUUAUU
.....((((....((((((((((((((.......(((((..((.......))..)))))((((((((........))))))))..)))))))))..))))).)))).............. ( -36.70)
>consensus
ACUGACGCAAGAGGAUUGGAACGUCGUCCUAUUCAAUGGCAUGGAAAAGACAAGUCAUUGGGCCGCAUUGUACUUUGUGGCCCUAAUGACGUUCGGCAAUUAUGUGCUAUUUAAUUUAUU
............((((((((((...(((...((((......))))...)))..((((((((((((((........)))))))).))))))))))((((......))))...))))))... (-30.79 = -30.98 +   0.19)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:45 2006