Locus 744

Sequence ID 2R_DroMel_CAF1
Location 3,643,835 – 3,643,954
Length 119
Max. P 0.841091
window1301 window1302

overview

Window 1

Location 3,643,835 – 3,643,926
Length 91
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 75.31
Mean single sequence MFE -24.62
Consensus MFE -14.86
Energy contribution -15.53
Covariance contribution 0.67
Combinations/Pair 1.29
Mean z-score -1.64
Structure conservation index 0.60
SVM decision value 0.75
SVM RNA-class probability 0.841091
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3643835 91 + 20766785
---------AAUCC-------AAA-------GCAAUGGCCGAUGAAGAUAUCACAUUGAACGAGGAUCAGCUCCUGGAGUCAUUGGAGGAGACGAACGGGGAGCAAGAGACUGA
---------.((((-------...-------.(((((...((((....)))).))))).....))))..((((((.(.(((.........)))...).)))))).......... ( -22.50)
>DroVir_CAF1 4407 109 + 1
UCAAACGACAAAUCAA-----UAAAAGCAAUAUAAUGGCCGAUGAAGAUAUUACUUUAAACGAGGAUCAGCUCUUGGAGUCGCUGGAGGAGACAAACGGCGAACAGGAGACUGA
................-----.................((..(((((......))))).....)).((((((((((...((((((..(....)...)))))).)))))).)))) ( -26.70)
>DroWil_CAF1 5283 91 + 1
---------AAUCA-------CAC-------ACAAUGGCCGAUGAAGAUAUUACUUUGAAUGAGGAUCAGCUGUUGGAGUCGCUGGAGGAGACAAACGGCGAGCAGGAGACUGA
---------.....-------...-------.(((((((.(((((((......))))........))).)))))))...((((((..(....)...)))))).(((....))). ( -24.90)
>DroMoj_CAF1 4712 103 + 1
--------UAAAUCAAUA---UAAAAUAAUUAUAAUGGCUGAUGAAGAUAUUACUUUAAACGAGGAUCAGCUUCUGGAGUCGCUGGAAGAGACAAACGGCGAACAGGAGACUGG
--------....(((.((---(((.....))))).)))....(((((......))))).........(((((((((...((((((...........)))))).)))))).))). ( -23.70)
>DroAna_CAF1 4120 91 + 1
---------AAUCC-------GCA-------AUAAUGGCCGAUGAAGAUAUUACACUGAAUGAGGAUCAGCUCUUGGAGUCGCUGGAGGAGACAAAUGGCGAGCAGGAGGCCGA
---------.....-------...-------....(((((...............((((.......)))).(((((...((((((..(....)...)))))).)))))))))). ( -23.30)
>DroPer_CAF1 7122 105 + 1
---------AAAACCACUCACAAAAAUUAGCAAAAUGGCUGAUGAAGAUAUCUCAUUGAACGAGGACCAGCUCUUGGAGUCGAUGGAAGAGACCAAUGGCGAGCAGGAGACUGA
---------.......(((......((((((......)))))).......((.....))..)))...(((((((((..((((.(((......))).))))...)))))).))). ( -26.60)
>consensus
_________AAACC_______AAA_______AUAAUGGCCGAUGAAGAUAUUACAUUGAACGAGGAUCAGCUCUUGGAGUCGCUGGAGGAGACAAACGGCGAGCAGGAGACUGA
..................................................................((((((((((...((((((..(....)...)))))).)))))).)))) (-14.86 = -15.53 +   0.67) 

alignment

Postscript

secondary structure

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dotplot

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Window 2

Location 3,643,846 – 3,643,954
Length 108
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 81.59
Mean single sequence MFE -28.62
Consensus MFE -20.89
Energy contribution -20.98
Covariance contribution 0.09
Combinations/Pair 1.36
Mean z-score -1.38
Structure conservation index 0.73
SVM decision value 0.14
SVM RNA-class probability 0.602120
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3643846 108 + 20766785
AUGGCCGAUGAAGAUAUCACAUUGAACGAGGAUCAGCUCCUGGAGUCAUUGGAGGAGACGAACGGGGAGCAAGAGACUGAGAUCGCCACAGAGGU---CGAGGUGAGUUGG
.((..(((((.........)))))..)).......((((((.(.(((.........)))...).))))))....((((.(..(((((.....)).---)))..).)))).. ( -27.00)
>DroVir_CAF1 4436 108 + 1
AUGGCCGAUGAAGAUAUUACUUUAAACGAGGAUCAGCUCUUGGAGUCGCUGGAGGAGACAAACGGCGAACAGGAGACUGAAAUUGUGACUGA---AACAGAGGUAAGUGUG
...(((..(((((......))))).((((...((((((((((...((((((..(....)...)))))).)))))).))))..))))......---......)))....... ( -32.70)
>DroGri_CAF1 4524 108 + 1
AUGGCAGAUGAAGAUAUUACUUUAAACGAAGACCAGCUCUUGGAGUCGCUGGAUGAGACAAACGGUGAACAGGAGGCUGAAAUUGUGACUGA---AACAGAGGUGAGUGUU
.((.(((.(((((......))))).((((....(((((((((...((((((..((...))..)))))).))))).))))...))))..))).---..))............ ( -25.00)
>DroWil_CAF1 5294 108 + 1
AUGGCCGAUGAAGAUAUUACUUUGAAUGAGGAUCAGCUGUUGGAGUCGCUGGAGGAGACAAACGGCGAGCAGGAGACUGAAAUUACCAAUGA---AGUCGAGGUAAGAUAC
................(((((((((.((.....))...(((((..((((((..(....)...)))))).(((....)))......)))))..---..)))))))))..... ( -29.10)
>DroMoj_CAF1 4735 108 + 1
AUGGCUGAUGAAGAUAUUACUUUAAACGAGGAUCAGCUUCUGGAGUCGCUGGAAGAGACAAACGGCGAACAGGAGACUGGGAUUGCGACUGA---AGCAGAGGUAAGCGUA
...(((..(((((......))))).((.....((((((((((...((((((...........)))))).)))))).))))..((((......---.))))..)).)))... ( -28.80)
>DroAna_CAF1 4131 107 + 1
AUGGCCGAUGAAGAUAUUACACUGAAUGAGGAUCAGCUCUUGGAGUCGCUGGAGGAGACAAAUGGCGAGCAGGAGGCCGAGAUCACCACAGA---GACCGAGGUGAGUUG-
.(((((...............((((.......)))).(((((...((((((..(....)...)))))).))))))))))...(((((.(...---....).)))))....- ( -29.10)
>consensus
AUGGCCGAUGAAGAUAUUACUUUAAACGAGGAUCAGCUCUUGGAGUCGCUGGAGGAGACAAACGGCGAACAGGAGACUGAAAUUGCCACUGA___AACAGAGGUAAGUGUG
...(((..(((((......)))))..(((...((((((((((...((((((..(....)...)))))).)))))).))))..)))................)))....... (-20.89 = -20.98 +   0.09) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:06 2006