Locus 7114

Sequence ID 3L_DroMel_CAF1
Location 19,167,468 – 19,167,628
Length 160
Max. P 0.993279
window11538 window11539 window11540 window11541

overview

Window 8

Location 19,167,468 – 19,167,588
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 98.75
Mean single sequence MFE -35.91
Consensus MFE -34.37
Energy contribution -34.43
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -1.65
Structure conservation index 0.96
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19167468 120 + 23771897
AAUCGAGGGGAAAAUGCAUUUUCCCGCACACCCACAAUUGCCAACACGUGUGCGGCACGAAAACUAAACUGGCGUCAUUUAAUUAACCCGCCAGUGCAGCAGAGGGGUCCGCUUAACCCC
..(((..(((((((....)))))))((((((................))))))....)))...((..(((((((..............)))))))..))....(((((.......))))) ( -35.93)
>DroSim_CAF1 263 120 + 1
AAUCGAGGGGAAAAUGCAUUUUCCCGCACACCCACAAUUGCCAACACGUGUGCGGCACGGAAACCAAACUGGCGUCAUUUAAUUAACCCGCCAGUGCAGCAGAGGGGUCCGCUUAACCCC
......((((.....((......((((((((................))))))))...(((..((..(((((((..............))))))).(....).))..)))))....)))) ( -37.73)
>DroEre_CAF1 11 120 + 1
AAUCGAGGGGAAAAUGCAUUUUCCCGCACACCCACAAUUGCCAACACGUGUGCGGCACGAAAACUAAACUGGCGUCAUUUAAUUAACCCGCCAGUGCAGCAGAGGGGUCCGCUUAACCCC
..(((..(((((((....)))))))((((((................))))))....)))...((..(((((((..............)))))))..))....(((((.......))))) ( -35.93)
>DroYak_CAF1 1752 120 + 1
AAUCGAGGGGAAAAUGCAUUUUCCCGCACUCCCACAAUUGCCAACACGUGUGCGGCACGAAAACUAAACUGGCGUCAUUUAAUUAACCCGCCAGUGCAGCAGAGGGGUCCGCUUAACCCC
..(((..(((((((....))))))).............((((.((....))..)))))))...((..(((((((..............)))))))..))....(((((.......))))) ( -34.04)
>consensus
AAUCGAGGGGAAAAUGCAUUUUCCCGCACACCCACAAUUGCCAACACGUGUGCGGCACGAAAACUAAACUGGCGUCAUUUAAUUAACCCGCCAGUGCAGCAGAGGGGUCCGCUUAACCCC
......((((....(((.(((((((((((((................))))))))...)))))....(((((((..............))))))))))((.((....)).))....)))) (-34.37 = -34.43 +   0.06)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,167,468 – 19,167,588
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 98.75
Mean single sequence MFE -44.33
Consensus MFE -43.89
Energy contribution -43.70
Covariance contribution -0.19
Combinations/Pair 1.03
Mean z-score -1.65
Structure conservation index 0.99
SVM decision value 0.03
SVM RNA-class probability 0.548122
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19167468 120 - 23771897
GGGGUUAAGCGGACCCCUCUGCUGCACUGGCGGGUUAAUUAAAUGACGCCAGUUUAGUUUUCGUGCCGCACACGUGUUGGCAAUUGUGGGUGUGCGGGAAAAUGCAUUUUCCCCUCGAUU
(((.....(((.((((....((((.(((((((.(((.....)))..))))))).)))).....(((((((....)).))))).....)))).)))(((((((....)))))))))).... ( -44.10)
>DroSim_CAF1 263 120 - 1
GGGGUUAAGCGGACCCCUCUGCUGCACUGGCGGGUUAAUUAAAUGACGCCAGUUUGGUUUCCGUGCCGCACACGUGUUGGCAAUUGUGGGUGUGCGGGAAAAUGCAUUUUCCCCUCGAUU
((((...((((((....))))))(((((((((.(((.....)))..)))))))....((((((..((.((((..((....))..)))).).)..))))))...)).....))))...... ( -45.80)
>DroEre_CAF1 11 120 - 1
GGGGUUAAGCGGACCCCUCUGCUGCACUGGCGGGUUAAUUAAAUGACGCCAGUUUAGUUUUCGUGCCGCACACGUGUUGGCAAUUGUGGGUGUGCGGGAAAAUGCAUUUUCCCCUCGAUU
(((.....(((.((((....((((.(((((((.(((.....)))..))))))).)))).....(((((((....)).))))).....)))).)))(((((((....)))))))))).... ( -44.10)
>DroYak_CAF1 1752 120 - 1
GGGGUUAAGCGGACCCCUCUGCUGCACUGGCGGGUUAAUUAAAUGACGCCAGUUUAGUUUUCGUGCCGCACACGUGUUGGCAAUUGUGGGAGUGCGGGAAAAUGCAUUUUCCCCUCGAUU
((((((.....))))))...((((.(((((((.(((.....)))..))))))).)))).....(((((((....)).)))))((((.(((((((((......)))))..))))..)))). ( -43.30)
>consensus
GGGGUUAAGCGGACCCCUCUGCUGCACUGGCGGGUUAAUUAAAUGACGCCAGUUUAGUUUUCGUGCCGCACACGUGUUGGCAAUUGUGGGUGUGCGGGAAAAUGCAUUUUCCCCUCGAUU
((((...((((((....))))))(((((((((.(((.....)))..)))))))....((((((..((.((((..((....))..)))).).)..))))))...)).....))))...... (-43.89 = -43.70 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,167,508 – 19,167,628
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.42
Mean single sequence MFE -44.24
Consensus MFE -41.14
Energy contribution -42.14
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.54
Structure conservation index 0.93
SVM decision value 1.84
SVM RNA-class probability 0.979403
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19167508 120 + 23771897
CCAACACGUGUGCGGCACGAAAACUAAACUGGCGUCAUUUAAUUAACCCGCCAGUGCAGCAGAGGGGUCCGCUUAACCCCUGCCGCACACGGCGACCACAUGAUGAUUACGAUGGCGACG
......((((((((((.......((..(((((((..............)))))))..))...((((((.......)))))))))))))))).((.((((.(((...))).).)))))... ( -44.54)
>DroSim_CAF1 303 120 + 1
CCAACACGUGUGCGGCACGGAAACCAAACUGGCGUCAUUUAAUUAACCCGCCAGUGCAGCAGAGGGGUCCGCUUAACCCCUGCCGCACACGGCGACCACAUGAUGAUUACGAUGGCGACG
......((((((((((..(....)...(((((((..............))))))).......((((((.......)))))))))))))))).((.((((.(((...))).).)))))... ( -44.24)
>DroEre_CAF1 51 114 + 1
CCAACACGUGUGCGGCACGAAAACUAAACUGGCGUCAUUUAAUUAACCCGCCAGUGCAGCAGAGGGGUCCGCUUAACCCCUGCCGCACACGGCGACCACAUGAUGAUUGCGAUG------
......((((((((((.......((..(((((((..............)))))))..))...((((((.......))))))))))))))))((((.((.....)).))))....------ ( -45.74)
>DroYak_CAF1 1792 120 + 1
CCAACACGUGUGCGGCACGAAAACUAAACUGGCGUCAUUUAAUUAACCCGCCAGUGCAGCAGAGGGGUCCGCUUAACCCCUGCCACACACGGCGACCACAUGAUGAUUGCGAUGGCGAUG
(((.(.((((((.(((.......((..(((((((..............)))))))..))...((((((.......))))))))).))))))((((.((.....)).))))).)))..... ( -42.44)
>consensus
CCAACACGUGUGCGGCACGAAAACUAAACUGGCGUCAUUUAAUUAACCCGCCAGUGCAGCAGAGGGGUCCGCUUAACCCCUGCCGCACACGGCGACCACAUGAUGAUUACGAUGGCGACG
(((.(.((((((((((...........(((((((..............))))))).......((((((.......))))))))))))))))((((.((.....)).))))).)))..... (-41.14 = -42.14 +   1.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,167,508 – 19,167,628
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 95.42
Mean single sequence MFE -51.62
Consensus MFE -50.12
Energy contribution -49.75
Covariance contribution -0.38
Combinations/Pair 1.07
Mean z-score -2.85
Structure conservation index 0.97
SVM decision value 2.39
SVM RNA-class probability 0.993279
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19167508 120 - 23771897
CGUCGCCAUCGUAAUCAUCAUGUGGUCGCCGUGUGCGGCAGGGGUUAAGCGGACCCCUCUGCUGCACUGGCGGGUUAAUUAAAUGACGCCAGUUUAGUUUUCGUGCCGCACACGUGUUGG
.((.((((.(((.......))))))).))(((((((((((((((((.....))))))...((((.(((((((.(((.....)))..))))))).)))).....)))))))))))...... ( -52.40)
>DroSim_CAF1 303 120 - 1
CGUCGCCAUCGUAAUCAUCAUGUGGUCGCCGUGUGCGGCAGGGGUUAAGCGGACCCCUCUGCUGCACUGGCGGGUUAAUUAAAUGACGCCAGUUUGGUUUCCGUGCCGCACACGUGUUGG
.((.((((.(((.......))))))).))(((((((((((((((((.....))))))...((((.(((((((.(((.....)))..))))))).)))).....)))))))))))...... ( -51.10)
>DroEre_CAF1 51 114 - 1
------CAUCGCAAUCAUCAUGUGGUCGCCGUGUGCGGCAGGGGUUAAGCGGACCCCUCUGCUGCACUGGCGGGUUAAUUAAAUGACGCCAGUUUAGUUUUCGUGCCGCACACGUGUUGG
------.((((((.......)))))).(((((((((((((((((((.....))))))...((((.(((((((.(((.....)))..))))))).)))).....))))))))))).))... ( -51.20)
>DroYak_CAF1 1792 120 - 1
CAUCGCCAUCGCAAUCAUCAUGUGGUCGCCGUGUGUGGCAGGGGUUAAGCGGACCCCUCUGCUGCACUGGCGGGUUAAUUAAAUGACGCCAGUUUAGUUUUCGUGCCGCACACGUGUUGG
....((.((((((.......)))))).))(((((((((((((((((.....))))))...((((.(((((((.(((.....)))..))))))).)))).....)))))))))))...... ( -51.80)
>consensus
CGUCGCCAUCGCAAUCAUCAUGUGGUCGCCGUGUGCGGCAGGGGUUAAGCGGACCCCUCUGCUGCACUGGCGGGUUAAUUAAAUGACGCCAGUUUAGUUUUCGUGCCGCACACGUGUUGG
.....(((.(((.(((((...))))).))(((((((((((((((((.....))))))...((((.(((((((.(((.....)))..))))))).)))).....))))))))))).).))) (-50.12 = -49.75 +  -0.38)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:11 2006