Locus 4699

Sequence ID 3L_DroMel_CAF1
Location 13,244,982 – 13,245,151
Length 169
Max. P 0.715638
window7406 window7407

overview

Window 6

Location 13,244,982 – 13,245,082
Length 100
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 76.15
Mean single sequence MFE -20.78
Consensus MFE -7.66
Energy contribution -9.38
Covariance contribution 1.72
Combinations/Pair 1.11
Mean z-score -1.91
Structure conservation index 0.37
SVM decision value 0.39
SVM RNA-class probability 0.715638
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13244982 100 + 23771897
ACAAGUACUCGAAUUGAGGUCACCUCACCUCUCCCAUGUGUAUAUU------ACCCACAACAAGUUCUU-UUUCAUCACUUGAAAGUGGCACCGCACACAUGUAUCC
...............(((((......)))))...(((((((.....------..((((..(((((....-.......)))))...))))......)))))))..... ( -20.72)
>DroSec_CAF1 7808 97 + 1
----GUACUCGAAUUGAGGUCACCUCACCUCUCCCAUGAGCAUCUU------ACCCAUAACAAGUUCUUUUUUCAGCACUUGAAAGUGGCCCCGCACACAUGUAUCC
----...........(((((......)))))...((((........------........(((((.((......)).)))))...(((....)))...))))..... ( -16.80)
>DroSim_CAF1 8312 100 + 1
ACAAGUACUCGAAUUGAGGUCACCUCACCUCUCCCAUGUGCAUCUU------ACCCACAACAAGUUCUU-UUUCAGCACUUGAAAGUGGCCCCGCACACAUGUAUCC
....((((.......(((((......))))).....(((((.....------..((((..(((((.((.-....)).)))))...))))....)))))...)))).. ( -21.40)
>DroEre_CAF1 7299 81 + 1
ACUAGUACUCGGAUUGAGGUCACU-------------------CUC------ACCCAUAGCAAGAUAAU-UUUCAUCGUUUGAGAGUGGCUUCGCACACAUGUAUCC
..........((((.(((((((((-------------------(((------(.....(((..((....-..))...))))))))))))))))(((....))))))) ( -22.00)
>DroYak_CAF1 7920 101 + 1
ACAUGUACUCUGAUUGAGGUCACC-----UCCCCGAUGUGCAUCUUACCACUACUAAUAGCAAGUUCUU-UUGCAGCAUUUGAAAGUGGCUUCGCACACAUGUAGCC
((((((......((((.((.....-----.)).))))((((......(((((..(((..(((((....)-)))).....)))..)))))....)))))))))).... ( -23.00)
>consensus
ACAAGUACUCGAAUUGAGGUCACCUCACCUCUCCCAUGUGCAUCUU______ACCCAUAACAAGUUCUU_UUUCAGCACUUGAAAGUGGCCCCGCACACAUGUAUCC
.......(((.....)))................((((((....................(((((.((......)).)))))...(((....))).))))))..... ( -7.66 =  -9.38 +   1.72)

alignment

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secondary structure

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dotplot

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Window 7

Location 13,245,043 – 13,245,151
Length 108
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 92.07
Mean single sequence MFE -18.58
Consensus MFE -16.14
Energy contribution -16.78
Covariance contribution 0.64
Combinations/Pair 1.04
Mean z-score -1.23
Structure conservation index 0.87
SVM decision value 0.09
SVM RNA-class probability 0.579947
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13245043 108 + 23771897
UU-UUUCAUCACUUGAAAGUGGCACCGCACACAUGUAUCCAUUAAACCUGACUCCCCCUAAAAUUAGCUUCUCCGAACUGAUUAUAGUGUGCCCCUUUUCCCAAUCACA
..-...........(((((.(((((.(((....))).....................(((.((((((.(((...))))))))).))).))))).))))).......... ( -16.30)
>DroSec_CAF1 7865 109 + 1
UUUUUUCAGCACUUGAAAGUGGCCCCGCACACAUGUAUCCAUUAAACCUGACUCCCCCUAAAAUUAGCUUCUCCGAGCUGAUUAUAGUGUGCCCCUUUUCCCAAUCACA
..............(((((.((....(((((((((....)))...................(((((((((....)))))))))...))))))))))))).......... ( -20.20)
>DroSim_CAF1 8373 108 + 1
UU-UUUCAGCACUUGAAAGUGGCCCCGCACACAUGUAUCCAUUAAACCUGACUCCCCCUAAAAUUAGCUUCUCCGAGCUGAUUAUAGUGUGCCCCUUUUCCCAAUCACA
..-...........(((((.((....(((((((((....)))...................(((((((((....)))))))))...))))))))))))).......... ( -20.20)
>DroEre_CAF1 7341 106 + 1
AU-UUUCAUCGUUUGAGAGUGGCUUCGCACACAUGUAUCCAUUAAGCUUGACUCCC-CGAAAAUUAGCUUCUCCGAACUGAUUAUAGUCUGCCCCU-UUCCCAAUCACA
..-...........(((((.(((...((....(((....)))...))..((((...-....((((((.(((...)))))))))..)))).))).))-)))......... ( -14.10)
>DroYak_CAF1 7982 108 + 1
UU-UUGCAGCAUUUGAAAGUGGCUUCGCACACAUGUAGCCAUUAAGCCUGACUCCCCCUAAAAUUAGCUUUUCCGAGCUGAUUAUAGUGUGCCCCUUUUCCCAAUCACA
..-.....((((.....(((((((..(((....))))))))))..............(((.(((((((((....))))))))).))).))))................. ( -22.10)
>consensus
UU_UUUCAGCACUUGAAAGUGGCCCCGCACACAUGUAUCCAUUAAACCUGACUCCCCCUAAAAUUAGCUUCUCCGAGCUGAUUAUAGUGUGCCCCUUUUCCCAAUCACA
..............(((((.((....(((((((((....)))...................(((((((((....)))))))))...)))))))).)))))......... (-16.14 = -16.78 +   0.64)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:07 2006