Locus 2581

Sequence ID 2R_DroMel_CAF1
Location 9,114,928 – 9,115,068
Length 140
Max. P 0.910355
window4259 window4260

overview

Window 9

Location 9,114,928 – 9,115,032
Length 104
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 78.35
Mean single sequence MFE -37.45
Consensus MFE -15.87
Energy contribution -15.90
Covariance contribution 0.03
Combinations/Pair 1.12
Mean z-score -2.60
Structure conservation index 0.42
SVM decision value 0.76
SVM RNA-class probability 0.842820
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9114928 104 + 20766785
AAUCUUGCUUUUGGCCCUUUUUCUUGUUGUUGCA---G-----CACUGUUA-CGAGGGCGGCUUAUUAGCCUAAUUGCGUGAAGUUGGCUUUAAUGAGUCGCAAAAGGG-GCCA
...........((((((((((((((((....(((---.-----...))).)-)))).((((((((((((((.((((......))))))))..)))))))))))))))))-)))) ( -41.20)
>DroPse_CAF1 4526 104 + 1
UGUCGGUCUUUUGGCCUU------UGUUGGGGCA---GCAGAGCCCUUUUG-CGAGGCCAGCUUAUUAGGCUAAUUGCGUGAAGUUGGCUUUAAUGAGUCGAAAAACGGUGCCA
....(((....(((((((------.((.(((((.---.....)))))...)-))))))))((((((((((((((((......))))))).)))))))))...........))). ( -39.00)
>DroEre_CAF1 3174 104 + 1
AAUCUGGCUUUUGGCCCUUUUUCUUGUUGCUGCA---G-----CACUGCUG-CGAGGGCGGCUUAUUAGCCUAAUUGCGUGAAGUUGGCUUUAAUGAGUCGAAAAAGGG-GCCA
...........((((((((((((..(((..((((---(-----(...))))-))..)))((((((((((((.((((......))))))))..)))))))))))))).))-)))) ( -40.30)
>DroYak_CAF1 3188 103 + 1
AAUCUUGCUUUUGGGCCUUU-UCCUGUUGUUGCU---G-----CACUGUUA-CGAGGGCGGCUUAUUAGCCUAAUUGCGUGAAGUUGGCUUUAAUGAGUCGAAAAAGGG-GCCA
.............(((((((-(.((.((((.((.---.-----....)).)-))).))(((((((((((((.((((......))))))))..)))))))))...)))))-))). ( -32.90)
>DroAna_CAF1 3184 103 + 1
--UCCGCCCUCUGUCUCACUUUCUUUUUGGCCUG---G-----CCCUUUUGUCGAGGGCGGCUUAUUAGCCUAAUUGCGUGAAGUUGGCUUUAAUGAGUCGAAAAACGG-UGCC
--..........................((((((---(-----(((((.....))))))((((((((((((.((((......))))))))..))))))))......)))-.))) ( -31.10)
>DroPer_CAF1 4668 107 + 1
UCUCGGUCUUGUGGCCUU------UGUUGGGGCAGCAGCAGAGCCCUUAUG-CGAGGCCAGCUUAUUAGGCUAAUUGCGUGAAGUUGGCUUUAAUGAGUCGAAAAACGGUGCCA
....(((.((((((((((------.((.(((((.........)))))...)-))))))).((((((((((((((((......))))))).)))))))))......)))).))). ( -40.20)
>consensus
AAUCUGGCUUUUGGCCCUUU_UCUUGUUGGUGCA___G_____CACUGUUG_CGAGGGCGGCUUAUUAGCCUAAUUGCGUGAAGUUGGCUUUAAUGAGUCGAAAAACGG_GCCA
............(((((............................((........)).(((((((((((.((((((......))))))..)))))))))))......)).))). (-15.87 = -15.90 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 9,114,962 – 9,115,068
Length 106
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.54
Mean single sequence MFE -37.35
Consensus MFE -21.51
Energy contribution -22.07
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.71
Structure conservation index 0.58
SVM decision value 1.07
SVM RNA-class probability 0.910355
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9114962 106 + 20766785
G-----CACUGUUA-CGAGGGCGGCUUAUUAGCCUAAUUGCGUGAAGUUGGCUUUAAUGAGUCGCAAAAGGG-GCCAAGCCUGGCCC----ACAAAAGGCCACAAAGCAAAAGGCGC
(-----(..((((.-.(.((((((((((((((((.((((......))))))))..)))))))))).....((-((((....))))))----........)).)..))))....)).. ( -37.20)
>DroVir_CAF1 5873 104 + 1
G-----C-CUACUU-CU-GGGCGGCUUAUUAGGCUAAUUGCGUAAAGUUGGCUUUAAUGAGUCGAAAAACGGUGCCAAGCCUGGC-C----ACAAAAAGCCACAAAGCGUGCGGCAA
(-----(-((((((-.(-(((((((((((((((((((((......))))))).))))))))))........((((((....))).-)----)).....))).)).)).))).))).. ( -36.60)
>DroPse_CAF1 4554 103 + 1
GCAGAGCCCUUUUG-CGAGGCCAGCUUAUUAGGCUAAUUGCGUGAAGUUGGCUUUAAUGAGUCGAAAAACGGUGCCAAGUCGGGCCC----GCAAAAGGCCACAAAGG---------
.....(.(((((((-((.((((.((((((((((((((((......))))))).)))))))))(((.....(....)...))))))))----)))))))).).......--------- ( -39.10)
>DroGri_CAF1 3600 98 + 1
G-----C-CUACUU-CG-GGGCGGCUUAUUAGGCUAAUUGCGUAAAGUUGGCUUUAAUGAGUCGAAAAACGGUGCCAAGCCUGGC-C----ACAAAAAGCCACAAAGCA------AA
(-----(-...(..-..-)((((((((((((((((((((......))))))).))))))))))........((((((....))).-)----)).....))).....)).------.. ( -32.10)
>DroMoj_CAF1 5155 104 + 1
G-----C-CUACUU-CG-GGGCGGCUUAUUAGGCUAAUUGCGUAAAGUUGGCUUUAAUGAGUCGAAAAACGGUGCCAAGCCUGGC-C----ACAAAAAGCCACAAAGCAAGCGCCAA
(-----(-((....-..-))))(((((((((((((((((......))))))).)))))))))).......(((((...((.((((-.----.......))))....))..))))).. ( -37.60)
>DroAna_CAF1 3216 111 + 1
G-----CCCUUUUGUCGAGGGCGGCUUAUUAGCCUAAUUGCGUGAAGUUGGCUUUAAUGAGUCGAAAAACGG-UGCCAGCCAGGGCCCGGGCCAGAAAGCCACAAAGCAAAAGUGGC
(-----(((((((((...((((((((((((((((.((((......))))))))..)))))))).......((-(....)))...)))).(((......))).....))))))).))) ( -41.50)
>consensus
G_____C_CUACUU_CG_GGGCGGCUUAUUAGGCUAAUUGCGUAAAGUUGGCUUUAAUGAGUCGAAAAACGGUGCCAAGCCUGGC_C____ACAAAAAGCCACAAAGCAA__G_CAA
...................((((((((((((((((((((......))))))).))))))))))..........(((......))).............)))................ (-21.51 = -22.07 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:46 2006