Locus 6313

Sequence ID X_DroMel_CAF1
Location 15,975,832 – 15,975,981
Length 149
Max. P 0.999987
window10293 window10294 window10295

overview

Window 3

Location 15,975,832 – 15,975,942
Length 110
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.16
Mean single sequence MFE -32.42
Consensus MFE -32.24
Energy contribution -31.76
Covariance contribution -0.48
Combinations/Pair 1.06
Mean z-score -2.46
Structure conservation index 0.99
SVM decision value 5.06
SVM RNA-class probability 0.999971
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15975832 110 + 22224390
CC---AGCCAAUCUCGAGGCCGUUAAAGAUCUUUUGAGAUCUG-------AGAUCUCUGACCAGCCAGAUGGCAAGGUCGAAACCAUGCCUUAAUUAUUAAUACACAUAAGGCUAUGUAA
..---((((.((((...(((.((((.(((((((..(....).)-------)))))).))))..)))))))((((.(((....))).))))....................))))...... ( -31.20)
>DroSec_CAF1 43643 110 + 1
CU---AGCCAAUCUCGAGGCCGUGAAAGAUCUUUUGAGAUCUG-------AGAUCUCUGACCAGCCAGACGGCAAGGUCGACACCAUGCCUUAAUUAUUAAUACACAUAAGGCUAUGUAA
.(---((((......(((((.(((...((((((..((((((..-------.))))))......(((....)))))))))..)))...)))))..((((........)))))))))..... ( -31.00)
>DroSim_CAF1 34779 110 + 1
AU---AGCCAAUCUCGAGGCCGUGAAAGAUCUUUUGAGAUCUG-------AGAUCUCUGACCAGCCAGACGGCAAGGUCGACACCAUGCCUUAAUUAUUAAUACACAUAAGGCUAUGUAA
((---((((......(((((.(((...((((((..((((((..-------.))))))......(((....)))))))))..)))...)))))..((((........)))))))))).... ( -32.10)
>DroEre_CAF1 42513 113 + 1
CUCGUGGCCAAUCUCGAGGCCGUGAAAGAUCUUUUGAGAUCUG-------AGAUCUCUGACCAGCCACCCGGCAAGGUCGACACUAUGCCUUAAUUAUUAAUACACAUAAGGCUAUGUAA
..(((((((......(((((.(((...((((((..((((((..-------.))))))......(((....)))))))))..)))...)))))..((((........)))))))))))... ( -34.00)
>DroYak_CAF1 26388 117 + 1
CC---AGCCAAUCUCGAGGCCGUGAAAGAUCUUUUGAGAUCUGAGAACUGAGAUCUCUGACCAGCCAGACGGCAAGGUCGACACCAUGCCUUAAUUAUUAAUACACAUAAGGCUAUGUAA
..---((((......(((((.(((...((((((..(((((((.(....).)))))))......(((....)))))))))..)))...)))))..((((........))))))))...... ( -33.80)
>consensus
CU___AGCCAAUCUCGAGGCCGUGAAAGAUCUUUUGAGAUCUG_______AGAUCUCUGACCAGCCAGACGGCAAGGUCGACACCAUGCCUUAAUUAUUAAUACACAUAAGGCUAUGUAA
.....((((......(((((.(((...((((((..(((((((........)))))))......(((....)))))))))..)))...)))))..((((........))))))))...... (-32.24 = -31.76 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 4

Location 15,975,832 – 15,975,942
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.16
Mean single sequence MFE -36.60
Consensus MFE -36.06
Energy contribution -35.78
Covariance contribution -0.28
Combinations/Pair 1.06
Mean z-score -2.72
Structure conservation index 0.99
SVM decision value 5.45
SVM RNA-class probability 0.999987
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15975832 110 - 22224390
UUACAUAGCCUUAUGUGUAUUAAUAAUUAAGGCAUGGUUUCGACCUUGCCAUCUGGCUGGUCAGAGAUCU-------CAGAUCUCAAAAGAUCUUUAACGGCCUCGAGAUUGGCU---GG
.......((((((..(((....)))..))))))..((((((((((..(((....))).)))).)))))).-------.((((((....))))))....(((((........))))---). ( -37.60)
>DroSec_CAF1 43643 110 - 1
UUACAUAGCCUUAUGUGUAUUAAUAAUUAAGGCAUGGUGUCGACCUUGCCGUCUGGCUGGUCAGAGAUCU-------CAGAUCUCAAAAGAUCUUUCACGGCCUCGAGAUUGGCU---AG
.((((((......))))))...........((((.(((....))).))))..(((((..(((.(((..(.-------.((((((....)))))).....)..)))..)))..)))---)) ( -35.60)
>DroSim_CAF1 34779 110 - 1
UUACAUAGCCUUAUGUGUAUUAAUAAUUAAGGCAUGGUGUCGACCUUGCCGUCUGGCUGGUCAGAGAUCU-------CAGAUCUCAAAAGAUCUUUCACGGCCUCGAGAUUGGCU---AU
...(((.((((((..(((....)))..)))))))))(((..((((..(((....))).)))).((((((.-------..))))))...........)))((((........))))---.. ( -34.70)
>DroEre_CAF1 42513 113 - 1
UUACAUAGCCUUAUGUGUAUUAAUAAUUAAGGCAUAGUGUCGACCUUGCCGGGUGGCUGGUCAGAGAUCU-------CAGAUCUCAAAAGAUCUUUCACGGCCUCGAGAUUGGCCACGAG
.((((((......))))))...........((((..((....))..))))..(((((..(((.(((..(.-------.((((((....)))))).....)..)))..)))..)))))... ( -36.60)
>DroYak_CAF1 26388 117 - 1
UUACAUAGCCUUAUGUGUAUUAAUAAUUAAGGCAUGGUGUCGACCUUGCCGUCUGGCUGGUCAGAGAUCUCAGUUCUCAGAUCUCAAAAGAUCUUUCACGGCCUCGAGAUUGGCU---GG
...(((.((((((..(((....)))..)))))))))..(((((((..(((....))).)))).(((((((........)))))))....)))......(((((........))))---). ( -38.50)
>consensus
UUACAUAGCCUUAUGUGUAUUAAUAAUUAAGGCAUGGUGUCGACCUUGCCGUCUGGCUGGUCAGAGAUCU_______CAGAUCUCAAAAGAUCUUUCACGGCCUCGAGAUUGGCU___AG
...(((.((((((..(((....)))..)))))))))(((..((((..(((....))).)))).(((((((........)))))))...........)))((((........))))..... (-36.06 = -35.78 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,975,869 – 15,975,981
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.17
Mean single sequence MFE -26.28
Consensus MFE -25.30
Energy contribution -25.50
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.24
Structure conservation index 0.96
SVM decision value 0.66
SVM RNA-class probability 0.813380
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15975869 112 - 22224390
UUGUUCG-UUUUUUUCCUUUCCCGCAUUUCGAUUAAGCCAUUACAUAGCCUUAUGUGUAUUAAUAAUUAAGGCAUGGUUUCGACCUUGCCAUCUGGCUGGUCAGAGAUCU-------CAG
.......-...............(.((((((((((.((((.((((((......))))))...........((((.(((....))).))))...))))))))).)))))).-------... ( -26.10)
>DroSec_CAF1 43680 108 - 1
---UUCG-UUU-UUUCCUUUCCCGCAUUUCGAUUAAGCCAUUACAUAGCCUUAUGUGUAUUAAUAAUUAAGGCAUGGUGUCGACCUUGCCGUCUGGCUGGUCAGAGAUCU-------CAG
---....-...-...........(.((((((((((.((((.((((((......))))))...........((((.(((....))).))))...))))))))).)))))).-------... ( -26.30)
>DroSim_CAF1 34816 111 - 1
UCUUUCG-UUU-UUUCCUUUCCCGCAUUUCGAUUAAGCCAUUACAUAGCCUUAUGUGUAUUAAUAAUUAAGGCAUGGUGUCGACCUUGCCGUCUGGCUGGUCAGAGAUCU-------CAG
.......-...-...........(.((((((((((.((((.((((((......))))))...........((((.(((....))).))))...))))))))).)))))).-------... ( -26.30)
>DroEre_CAF1 42553 105 - 1
G-------UUU-UUUCCUUUCCCGCAUUUCGAUUAAGCCAUUACAUAGCCUUAUGUGUAUUAAUAAUUAAGGCAUAGUGUCGACCUUGCCGGGUGGCUGGUCAGAGAUCU-------CAG
.-------...-...........(.((((((((((.(((((((((((......))))))...........((((..((....))..))))..)))))))))).)))))).-------... ( -24.50)
>DroYak_CAF1 26425 119 - 1
UUUUUGUUUUU-UUUCCUUUCCCGCAUUUCGAUUAAGCCAUUACAUAGCCUUAUGUGUAUUAAUAAUUAAGGCAUGGUGUCGACCUUGCCGUCUGGCUGGUCAGAGAUCUCAGUUCUCAG
...........-..................(((((.((((.((((((......))))))...........((((.(((....))).))))...))))))))).((((.......)))).. ( -28.20)
>consensus
U__UUCG_UUU_UUUCCUUUCCCGCAUUUCGAUUAAGCCAUUACAUAGCCUUAUGUGUAUUAAUAAUUAAGGCAUGGUGUCGACCUUGCCGUCUGGCUGGUCAGAGAUCU_______CAG
.......................(.((((((((((.((((.((((((......))))))...........((((.(((....))).))))...))))))))).))))))........... (-25.30 = -25.50 +   0.20)

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 12:10:25 2006