Locus 8320

Sequence ID X_DroMel_CAF1
Location 20,666,992 – 20,667,168
Length 176
Max. P 0.996881
window13666 window13667 window13668

overview

Window 6

Location 20,666,992 – 20,667,089
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.52
Mean single sequence MFE -23.58
Consensus MFE -20.26
Energy contribution -20.26
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.86
SVM decision value 1.05
SVM RNA-class probability 0.907287
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20666992 97 + 22224390
--CCCCAUCCUGCCACAGGCCUAGCCCAAGCCAGCCCC--------------------AUCCCCUGGAA-AACCCCUUAGCGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUU
--........(((....(((...((....))..)))..--------------------.......((((-.(((((.....)))))...)))))))((((((....))))))........ ( -23.30)
>DroSec_CAF1 68643 96 + 1
--CCCCGUCCCGCCACAGGCCUAGCCCAAGCAA-CCCC--------------------ACCCCCUGGAA-AACCCCUUAGCGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUU
--.........((....(((...))).......-....--------------------.......((((-.(((((.....)))))...)))))).((((((....))))))........ ( -20.90)
>DroSim_CAF1 46122 97 + 1
--CCCCGUCCCGCCACAGGCCUAGCCCAAGCAAGCCCC--------------------ACCCCCUGGAA-AACCCCUUAGCGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUU
--.........((....(((...((....))..)))..--------------------.......((((-.(((((.....)))))...)))))).((((((....))))))........ ( -23.10)
>DroEre_CAF1 64317 117 + 1
--CCCCCUCCCCCCACAGGCGUAGCCCAAGCAAGCGCCACAGCACCACAGCACCCCCACCCCCCUGGAA-AACCCCUUAGCGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUU
--...............(((((.((....))..)))))...((......))..............((((-.(((((.....)))))...))))...((((((....))))))........ ( -27.50)
>DroYak_CAF1 65766 105 + 1
ACCCCCCUCCCACCGCAGGCCUAGCCCAAGCAAGCACC---------------UCCCUCCCCCCUGGAAAAACCCCUUAGCGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUU
..............(((((.((.((....)).))..))---------------)...........((((..(((((.....)))))...)))))).((((((....))))))........ ( -23.10)
>consensus
__CCCCCUCCCGCCACAGGCCUAGCCCAAGCAAGCCCC____________________ACCCCCUGGAA_AACCCCUUAGCGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUU
..................((...((....))..................................((((..(((((.....)))))...)))))).((((((....))))))........ (-20.26 = -20.26 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,667,028 – 20,667,129
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.10
Mean single sequence MFE -24.30
Consensus MFE -24.46
Energy contribution -24.46
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 1.01
SVM decision value 2.76
SVM RNA-class probability 0.996881
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20667028 101 + 22224390
------------------AUCCCCUGGAA-AACCCCUUAGCGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUUAAAUGGCGUAAUUUAUGAUUUUAUAGUGUGAAUUUUUUCU
------------------.......((((-.(((((.....)))))...))))((((...(((..((((((((.....)))))))).)))...((((....))))))))........... ( -23.50)
>DroSec_CAF1 68678 101 + 1
------------------ACCCCCUGGAA-AACCCCUUAGCGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUUAAAUGGCGUAAUUUAUGAUUUUAUAGUGUGAAUUUUUUCU
------------------.......((((-.(((((.....)))))...))))((((...(((..((((((((.....)))))))).)))...((((....))))))))........... ( -23.50)
>DroSim_CAF1 46158 101 + 1
------------------ACCCCCUGGAA-AACCCCUUAGCGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUUAAAUGGCGUAAUUUAUGAUUUUAUAGUGUGAAUUUUUUCU
------------------.......((((-.(((((.....)))))...))))((((...(((..((((((((.....)))))))).)))...((((....))))))))........... ( -23.50)
>DroEre_CAF1 64355 119 + 1
AGCACCACAGCACCCCCACCCCCCUGGAA-AACCCCUUAGCGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUUAAAUGGCGUAAUUUAUGAUUUUAUAGUGUGAAUUUUUUCU
.((......)).....((((((.((((..-......)))).)))))).....(((((...(((..((((((((.....)))))))).)))...((((....))))))))).......... ( -27.10)
>DroYak_CAF1 65804 107 + 1
-------------UCCCUCCCCCCUGGAAAAACCCCUUAGCGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUUAAAUGGCGUAAUUUAUGAUUUUAUAGUGUGAAUUUUUUCU
-------------............((((..(((((.....)))))...))))((((...(((..((((((((.....)))))))).)))...((((....))))))))........... ( -23.90)
>consensus
__________________ACCCCCUGGAA_AACCCCUUAGCGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUUAAAUGGCGUAAUUUAUGAUUUUAUAGUGUGAAUUUUUUCU
.........................((((..(((((.....)))))...))))((((...(((..((((((((.....)))))))).)))...((((....))))))))........... (-24.46 = -24.46 +   0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,667,049 – 20,667,168
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.66
Mean single sequence MFE -28.37
Consensus MFE -27.13
Energy contribution -27.13
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.28
Structure conservation index 0.96
SVM decision value 0.31
SVM RNA-class probability 0.683426
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20667049 119 + 22224390
CGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUUAAAUGGCGUAAUUUAUGAUUUUAUAGUGUGAAUUUUUUCUUCCUACGUUUUGCCUU-UUUAAAGUGGCGCCCCCAACGGC
.((((((.........((((((....))))))..(((((((((.((((.(((.((.((......(((....)))......)).)).))).))))..-))).))))))))))))....... ( -28.20)
>DroSec_CAF1 68699 119 + 1
CGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUUAAAUGGCGUAAUUUAUGAUUUUAUAGUGUGAAUUUUUUCUUCCUUCGUUUUGCCUU-UUUAAAGUGGCGCCCCCAACGGC
.((((((((.....((.((((..(.((((((((.....)))))))).)..)))).))((((((.((.(..((................))..))).-..))))))))))))))....... ( -27.89)
>DroSim_CAF1 46179 119 + 1
CGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUUAAAUGGCGUAAUUUAUGAUUUUAUAGUGUGAAUUUUUUCUUCCUUCGUUUUGCCUU-UUUAAAGUGGCGCCCCCAACGGC
.((((((((.....((.((((..(.((((((((.....)))))))).)..)))).))((((((.((.(..((................))..))).-..))))))))))))))....... ( -27.89)
>DroEre_CAF1 64394 118 + 1
CGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUUAAAUGGCGUAAUUUAUGAUUUUAUAGUGUGAAUUUUUUCUUCCUUCGCUUUGCCUU--UUAAAGUGGCGCCCCCAACGGC
.((((((((...(((((...(((..((((((((.....)))))))).)))...((((....)))))))))................((((((....--.))))))))))))))....... ( -30.60)
>DroYak_CAF1 65831 120 + 1
CGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUUAAAUGGCGUAAUUUAUGAUUUUAUAGUGUGAAUUUUUUCUUCCUUCGUUUUGCCUUUUUUAAAGUGGCGCCCCCAACGGC
.((((((((.....((.((((..(.((((((((.....)))))))).)..)))).))((((((.((.(..((................))..)))....))))))))))))))....... ( -27.29)
>consensus
CGGGGUGUCUUCCGCACAAAUGCCUCCAUUUGACCCACUUAAAUGGCGUAAUUUAUGAUUUUAUAGUGUGAAUUUUUUCUUCCUUCGUUUUGCCUU_UUUAAAGUGGCGCCCCCAACGGC
.((((((((.....((.((((..(.((((((((.....)))))))).)..)))).))((((((.((.(..((................))..)))....))))))))))))))....... (-27.13 = -27.13 +   0.00)

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 13:01:08 2006