Locus 4315

Sequence ID 2L_DroMel_CAF1
Location 12,342,079 – 12,342,176
Length 97
Max. P 0.583381
window6801 window6802

overview

Window 1

Location 12,342,079 – 12,342,176
Length 97
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 77.45
Mean single sequence MFE -25.62
Consensus MFE -16.12
Energy contribution -15.99
Covariance contribution -0.13
Combinations/Pair 1.29
Mean z-score -1.33
Structure conservation index 0.63
SVM decision value 0.10
SVM RNA-class probability 0.582771
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12342079 97 + 22407834
----------GGUUUCUUAAGCCGCCAUUCAUCAGUUUCGA--CUGGCCAAGUAUUUAAGCCAUUUUCUCUAAUGAAUGCGGUCGCGCAUUUUUAAGCGCCC--------ACAAAAC
----------((........(((((.((((((.((....((--.((((...........)))).))...)).))))))))))).((((........))))))--------....... ( -25.40)
>DroVir_CAF1 206104 93 + 1
--------ACUAGUUCUUAAGCUGCCACACAACAUUUGCGG-----GCCAAGUAUUUAAGCCAUUUGCGCUAAUGAAUGCGGUCGCGCAUUUUUAAGCGUAC--------CCAA---
--------.......(((((((((((.(.((.....)).))-----))..)))..))))).....((((((...(((((((....)))))))...)))))).--------....--- ( -22.50)
>DroPse_CAF1 240375 96 + 1
------AGACUGGCUCUUAAGCUGCCAUUCAGCAAUUUCGA--CUGGCCAAGUAUUUAAGCCAUUUGCACUAAUGAAUGCGGUCGCGCAUUUUUAAGCGCC-------------AAU
------....((((.(((((((((.....)))).....(((--.((((...........)))).))).......(((((((....)))))))))))).)))-------------).. ( -25.80)
>DroWil_CAF1 206692 101 + 1
------CUUCUACUACUUAAGCUGCCAUUCAGCGAUUUUGGUUCUGGCCAAGUAUUUAAGCCAUUUGCACUAAUGAAUGCGGUCGCGCAUUUUUAAGCGUUC--------AA--AAU
------.........(((((((((.....))))...((((((....))))))...)))))......((.((...(((((((....)))))))...)).))..--------..--... ( -20.20)
>DroAna_CAF1 152009 106 + 1
---------GGGGCUCUUAAGCUGCCAUUCGCCACUUUCGA--CUGGCCAAGUAUUUAAGCCAUUUGCACUAAUGAAUGCGGUCGCGCAUUUUUGAGUGCCCCAUUGCCUACGAAAC
---------((((((.....(((((((.(((.......)))--.))))..))).....))))....(((((...(((((((....)))))))...))))).)).............. ( -32.40)
>DroPer_CAF1 246690 102 + 1
GUAAGGGGACUGGCUCUUAAGCUGCCAUUCAGCAAUUUCGA--CUGGCCAAGUAUUUAAGCCAUUUGCACUAAUGAAUGCGGUCGCGCAUUUUUAAGCGCC-------------AAU
...((....))(((.(((((((((.....)))).....(((--.((((...........)))).))).......(((((((....)))))))))))).)))-------------... ( -27.40)
>consensus
________ACUGGCUCUUAAGCUGCCAUUCAGCAAUUUCGA__CUGGCCAAGUAUUUAAGCCAUUUGCACUAAUGAAUGCGGUCGCGCAUUUUUAAGCGCCC________AC__AAU
....................(((((.(((((.......(((...((((...........)))).)))......)))))))))).((((........))))................. (-16.12 = -15.99 +  -0.13)

alignment

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secondary structure

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dotplot

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Window 2

Location 12,342,079 – 12,342,176
Length 97
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 77.45
Mean single sequence MFE -28.83
Consensus MFE -14.66
Energy contribution -15.25
Covariance contribution 0.59
Combinations/Pair 1.21
Mean z-score -1.84
Structure conservation index 0.51
SVM decision value 0.10
SVM RNA-class probability 0.583381
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12342079 97 - 22407834
GUUUUGU--------GGGCGCUUAAAAAUGCGCGACCGCAUUCAUUAGAGAAAAUGGCUUAAAUACUUGGCCAG--UCGAAACUGAUGAAUGGCGGCUUAAGAAACC----------
(((((..--------((((((........))))..(((((((((((((.((...(((((.........))))).--))....))))))))).))))))...))))).---------- ( -34.40)
>DroVir_CAF1 206104 93 - 1
---UUGG--------GUACGCUUAAAAAUGCGCGACCGCAUUCAUUAGCGCAAAUGGCUUAAAUACUUGGC-----CCGCAAAUGUUGUGUGGCAGCUUAAGAACUAGU--------
---...(--------((.(((........))((..((((((.((((.(((.....((((.........)))-----)))).))))..))))))..))....).)))...-------- ( -24.90)
>DroPse_CAF1 240375 96 - 1
AUU-------------GGCGCUUAAAAAUGCGCGACCGCAUUCAUUAGUGCAAAUGGCUUAAAUACUUGGCCAG--UCGAAAUUGCUGAAUGGCAGCUUAAGAGCCAGUCU------
(((-------------(((.(((((.(((...((((.((((......))))...(((((.........))))))--)))..)))((((.....))))))))).))))))..------ ( -31.10)
>DroWil_CAF1 206692 101 - 1
AUU--UU--------GAACGCUUAAAAAUGCGCGACCGCAUUCAUUAGUGCAAAUGGCUUAAAUACUUGGCCAGAACCAAAAUCGCUGAAUGGCAGCUUAAGUAGUAGAAG------
(((--((--------(..((((....((((((....))))))....))))....(((((.........)))))....)))))).((((.....))))..............------ ( -21.90)
>DroAna_CAF1 152009 106 - 1
GUUUCGUAGGCAAUGGGGCACUCAAAAAUGCGCGACCGCAUUCAUUAGUGCAAAUGGCUUAAAUACUUGGCCAG--UCGAAAGUGGCGAAUGGCAGCUUAAGAGCCCC---------
..............(((((.............((((.((((......))))...(((((.........))))))--))).((((.((.....)).))))....)))))--------- ( -29.60)
>DroPer_CAF1 246690 102 - 1
AUU-------------GGCGCUUAAAAAUGCGCGACCGCAUUCAUUAGUGCAAAUGGCUUAAAUACUUGGCCAG--UCGAAAUUGCUGAAUGGCAGCUUAAGAGCCAGUCCCCUUAC
(((-------------(((.(((((.(((...((((.((((......))))...(((((.........))))))--)))..)))((((.....))))))))).))))))........ ( -31.10)
>consensus
AUU__GU________GGGCGCUUAAAAAUGCGCGACCGCAUUCAUUAGUGCAAAUGGCUUAAAUACUUGGCCAG__UCGAAAUUGCUGAAUGGCAGCUUAAGAACCAGU________
..................((((....((((((....))))))....))))....(((((.........)))))...........((((.....)))).................... (-14.66 = -15.25 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:53 2006