Locus 6152

Sequence ID X_DroMel_CAF1
Location 15,717,887 – 15,718,035
Length 148
Max. P 0.999840
window10009 window10010 window10011 window10012

overview

Window 9

Location 15,717,887 – 15,717,995
Length 108
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 95.54
Mean single sequence MFE -42.16
Consensus MFE -40.50
Energy contribution -40.54
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -2.33
Structure conservation index 0.96
SVM decision value 4.22
SVM RNA-class probability 0.999840
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15717887 108 + 22224390
GGUCUUGCUGCUGCCCAUAUUCGGAUCGCCAAUGAUCCCUGGGCUCGGCUUCCGUCUCCAGAACAUUGCCCACCAUGUUCACAGAUGGCAGCAGGUAGACCACGUUGG
(((((..((((((((.......((((((....))))))(((((..(((...)))...)).((((((........)))))).)))..))))))))..)))))....... ( -42.00)
>DroSec_CAF1 1379 108 + 1
GGUCUUGCUGCUGCCCAUAUUCGGAUCGCCAGUGAUCCCUGGGCUCGGCUUCCGUCUCCAGAACAUUGCCGACCAUGUUCACAGAUGGCAGCAGGUAGACCACGUUGG
(((((..((((((((.......((((((....))))))...((.(((((.....((....)).....)))))))............))))))))..)))))....... ( -44.10)
>DroSim_CAF1 727 108 + 1
GGUCUUGCUGCUGCCCAUAUUCGGAUCGCCAGUGAUCCCUGGGCUCGGCUUCCGUCUCCAGAACAUUGCCGACCAUGUUCACAGAUGGCAGCAGGUAGACCACGUUGG
(((((..((((((((.......((((((....))))))...((.(((((.....((....)).....)))))))............))))))))..)))))....... ( -44.10)
>DroEre_CAF1 1370 105 + 1
GGUCUUGCUGCUGCCCAUAUUCGGAUCGCCAAUGAUCCCUGGGCUCGGUUUCCGUCUCCAGAACAUUGCC---CAUGUUCACAGAUGGGAGCAGGUAGACCACGUUGG
(((((..((((((((((.....((((((....)))))).)))))......(((((((...((((((....---.))))))..))))))))))))..)))))....... ( -42.00)
>DroYak_CAF1 726 105 + 1
GGUCUUGCUGCUGCCCAUACUCGGAUCGCCAAUGAUCUCUGGGCUCGGUUUCCGUCUCCAGAACACUGCC---CAUGUUCACAGAUGGCAGCAGGUAGACCACGUUGG
(((((..((((((((........(((((....)))))((((((..(((...)))...)).(((((.....---..))))).)))).))))))))..)))))....... ( -38.60)
>consensus
GGUCUUGCUGCUGCCCAUAUUCGGAUCGCCAAUGAUCCCUGGGCUCGGCUUCCGUCUCCAGAACAUUGCC_ACCAUGUUCACAGAUGGCAGCAGGUAGACCACGUUGG
(((((..((((((((((.....((((((....)))))).))))).......((((((...((((((........))))))..)))))).)))))..)))))....... (-40.50 = -40.54 +   0.04)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,717,887 – 15,717,995
Length 108
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 95.54
Mean single sequence MFE -45.72
Consensus MFE -38.56
Energy contribution -38.96
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -3.13
Structure conservation index 0.84
SVM decision value 3.18
SVM RNA-class probability 0.998658
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15717887 108 - 22224390
CCAACGUGGUCUACCUGCUGCCAUCUGUGAACAUGGUGGGCAAUGUUCUGGAGACGGAAGCCGAGCCCAGGGAUCAUUGGCGAUCCGAAUAUGGGCAGCAGCAAGACC
.......(((((...((((((((((((....)).))))(((....(((((....))))))))..(((((.(((((......))))).....))))).))))))))))) ( -46.30)
>DroSec_CAF1 1379 108 - 1
CCAACGUGGUCUACCUGCUGCCAUCUGUGAACAUGGUCGGCAAUGUUCUGGAGACGGAAGCCGAGCCCAGGGAUCACUGGCGAUCCGAAUAUGGGCAGCAGCAAGACC
.......(((((..((((((((..(((.......(((((((....(((((....)))))))))).)))))(((((......))))).......))))))))..))))) ( -46.81)
>DroSim_CAF1 727 108 - 1
CCAACGUGGUCUACCUGCUGCCAUCUGUGAACAUGGUCGGCAAUGUUCUGGAGACGGAAGCCGAGCCCAGGGAUCACUGGCGAUCCGAAUAUGGGCAGCAGCAAGACC
.......(((((..((((((((..(((.......(((((((....(((((....)))))))))).)))))(((((......))))).......))))))))..))))) ( -46.81)
>DroEre_CAF1 1370 105 - 1
CCAACGUGGUCUACCUGCUCCCAUCUGUGAACAUG---GGCAAUGUUCUGGAGACGGAAACCGAGCCCAGGGAUCAUUGGCGAUCCGAAUAUGGGCAGCAGCAAGACC
.......(((((..((((((((((.........((---(((....(((((....))))).....))))).(((((......)))))....))))).)))))..))))) ( -44.60)
>DroYak_CAF1 726 105 - 1
CCAACGUGGUCUACCUGCUGCCAUCUGUGAACAUG---GGCAGUGUUCUGGAGACGGAAACCGAGCCCAGAGAUCAUUGGCGAUCCGAGUAUGGGCAGCAGCAAGACC
.......(((((..((((((((...........((---(((.(..(((((....)))))..)..)))))(.((((......))))).......))))))))..))))) ( -44.10)
>consensus
CCAACGUGGUCUACCUGCUGCCAUCUGUGAACAUGGU_GGCAAUGUUCUGGAGACGGAAGCCGAGCCCAGGGAUCAUUGGCGAUCCGAAUAUGGGCAGCAGCAAGACC
.......(((((..((((((((................(((....(((((....))))).....)))...(((((......))))).......))))))))..))))) (-38.56 = -38.96 +   0.40)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,717,915 – 15,718,035
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.32
Mean single sequence MFE -44.92
Consensus MFE -40.98
Energy contribution -40.58
Covariance contribution -0.40
Combinations/Pair 1.12
Mean z-score -2.21
Structure conservation index 0.91
SVM decision value 3.31
SVM RNA-class probability 0.998972
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15717915 120 + 22224390
CCAAUGAUCCCUGGGCUCGGCUUCCGUCUCCAGAACAUUGCCCACCAUGUUCACAGAUGGCAGCAGGUAGACCACGUUGGAUAAACUGCUGCUAUUGCUGUUCGCGUUGGGGCCAUUGCU
.(((((....(((((..(((...)))..)))))......((((.(.((((..((((((((((((((.....((.....)).....))))))))))..))))..)))).)))))))))).. ( -45.60)
>DroSec_CAF1 1407 120 + 1
CCAGUGAUCCCUGGGCUCGGCUUCCGUCUCCAGAACAUUGCCGACCAUGUUCACAGAUGGCAGCAGGUAGACCACGUUGGAUAAACUGCUGCUAUUGCUGUUCGCGUUGGGGCCAUUGCU
.(((((..(((..((.(((((.....((....)).....)))))))((((..((((((((((((((.....((.....)).....))))))))))..))))..)))).)))..))))).. ( -46.70)
>DroSim_CAF1 755 120 + 1
CCAGUGAUCCCUGGGCUCGGCUUCCGUCUCCAGAACAUUGCCGACCAUGUUCACAGAUGGCAGCAGGUAGACCACGUUGGAUAAACUGCUGCUAUUGCUGUUCGCGUUGGGGCCAUUGCU
.(((((..(((..((.(((((.....((....)).....)))))))((((..((((((((((((((.....((.....)).....))))))))))..))))..)))).)))..))))).. ( -46.70)
>DroEre_CAF1 1398 117 + 1
CCAAUGAUCCCUGGGCUCGGUUUCCGUCUCCAGAACAUUGCC---CAUGUUCACAGAUGGGAGCAGGUAGACCACGUUGGAUAAACUGCUGCUAUUGCUGUUCGCGCUGGGACCAUUGCU
.(((((.((((.(.((.((((.(((((((...((((((....---.))))))..)))))))(((((.....((.....)).....)))))......))))...)).).)))).))))).. ( -39.90)
>DroYak_CAF1 754 117 + 1
CCAAUGAUCUCUGGGCUCGGUUUCCGUCUCCAGAACACUGCC---CAUGUUCACAGAUGGCAGCAGGUAGACCACGUUGGAUAAACUGCUGCUAUUGCUGUUCGCAUUGGGGCCAUUGCU
.(((((...((((((..(((...)))..)))))).....(((---(((((..((((((((((((((.....((.....)).....))))))))))..))))..))))..))))))))).. ( -45.70)
>consensus
CCAAUGAUCCCUGGGCUCGGCUUCCGUCUCCAGAACAUUGCC_ACCAUGUUCACAGAUGGCAGCAGGUAGACCACGUUGGAUAAACUGCUGCUAUUGCUGUUCGCGUUGGGGCCAUUGCU
.(((((..(((.(.((.((((...........((((((........))))))...(((((((((((.....((.....)).....)))))))))))))))...)).).)))..))))).. (-40.98 = -40.58 +  -0.40)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,717,915 – 15,718,035
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.32
Mean single sequence MFE -43.26
Consensus MFE -36.02
Energy contribution -36.82
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.97
Structure conservation index 0.83
SVM decision value 1.43
SVM RNA-class probability 0.953252
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15717915 120 - 22224390
AGCAAUGGCCCCAACGCGAACAGCAAUAGCAGCAGUUUAUCCAACGUGGUCUACCUGCUGCCAUCUGUGAACAUGGUGGGCAAUGUUCUGGAGACGGAAGCCGAGCCCAGGGAUCAUUGG
..(((((..(((.......((((..((.(((((((.....((.....)).....))))))).))))))........(((((...((((((....))).)))...))))))))..))))). ( -45.30)
>DroSec_CAF1 1407 120 - 1
AGCAAUGGCCCCAACGCGAACAGCAAUAGCAGCAGUUUAUCCAACGUGGUCUACCUGCUGCCAUCUGUGAACAUGGUCGGCAAUGUUCUGGAGACGGAAGCCGAGCCCAGGGAUCACUGG
..((.((..(((.......((((..((.(((((((.....((.....)).....))))))).)))))).....((((((((....(((((....))))))))))..))))))..)).)). ( -42.70)
>DroSim_CAF1 755 120 - 1
AGCAAUGGCCCCAACGCGAACAGCAAUAGCAGCAGUUUAUCCAACGUGGUCUACCUGCUGCCAUCUGUGAACAUGGUCGGCAAUGUUCUGGAGACGGAAGCCGAGCCCAGGGAUCACUGG
..((.((..(((.......((((..((.(((((((.....((.....)).....))))))).)))))).....((((((((....(((((....))))))))))..))))))..)).)). ( -42.70)
>DroEre_CAF1 1398 117 - 1
AGCAAUGGUCCCAGCGCGAACAGCAAUAGCAGCAGUUUAUCCAACGUGGUCUACCUGCUCCCAUCUGUGAACAUG---GGCAAUGUUCUGGAGACGGAAACCGAGCCCAGGGAUCAUUGG
..((((((((((..((((....((....))(((((.....((.....)).....)))))......))))....((---(((....(((((....))))).....))))))))))))))). ( -44.60)
>DroYak_CAF1 754 117 - 1
AGCAAUGGCCCCAAUGCGAACAGCAAUAGCAGCAGUUUAUCCAACGUGGUCUACCUGCUGCCAUCUGUGAACAUG---GGCAGUGUUCUGGAGACGGAAACCGAGCCCAGAGAUCAUUGG
..(((((..(.(.(((...((((..((.(((((((.....((.....)).....))))))).))))))...)))(---(((.(..(((((....)))))..)..)))).).)..))))). ( -41.00)
>consensus
AGCAAUGGCCCCAACGCGAACAGCAAUAGCAGCAGUUUAUCCAACGUGGUCUACCUGCUGCCAUCUGUGAACAUGGU_GGCAAUGUUCUGGAGACGGAAGCCGAGCCCAGGGAUCAUUGG
..(((((..(((.......((((..((.(((((((.....((.....)).....))))))).))))))..........(((....(((((....))))).....)))..)))..))))). (-36.02 = -36.82 +   0.80)

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 12:05:41 2006