Locus 4647

Sequence ID 2L_DroMel_CAF1
Location 13,309,271 – 13,309,416
Length 145
Max. P 0.688377
window7342 window7343

overview

Window 2

Location 13,309,271 – 13,309,376
Length 105
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 78.87
Mean single sequence MFE -45.50
Consensus MFE -27.51
Energy contribution -26.18
Covariance contribution -1.33
Combinations/Pair 1.44
Mean z-score -1.66
Structure conservation index 0.60
SVM decision value 0.32
SVM RNA-class probability 0.688377
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13309271 105 + 22407834
GUCCGUGUGCUCCGGCUGCU---GAAGUAAUAAUCGGUGGCUACACUCGGCGCCGGUGGCGGUGGUGGUAAGGCUGCCGGAAUGGCCAAUGGUGGCAAAUAGCCGGGU
..........((((((((..---..........((((..(((.(((.((.((((...)))).)))))....)))..))))....((((....))))...)))))))). ( -42.50)
>DroEre_CAF1 23471 105 + 1
GUCCGUGUGCUCCGGCUGCU---GAAGUAAUAAUCGGUGGCUACGCUCGGCGCCGGUGGCGGUGGUGGUAAGGCUGCCGGAAUGGCCAGUGGUGGCAAGUAGCCGGGU
..........((((((((((---..........((((..(((..((.((.(((((....))))).))))..)))..))))....((((....)))).)))))))))). ( -47.50)
>DroWil_CAF1 29042 108 + 1
GUCCGUGUACUCCGACUGGUGGCGAAAUAAUAGUCAGUGGCUACACUUGGCGCCGGCGGCGGUGGUGGUAAUGCUGGUGGCACAGGUAACGGCGGUAAAUAACCAGGA
.(((.......(((.(((.(((((......((((.....)))).......))))).))))))((((..((.(((((...((....))..))))).))....))))))) ( -34.12)
>DroYak_CAF1 22042 105 + 1
GUUCGUGUGCUCCGGCUGCU---GAAGUAAUAAUCGGUGGCUACACUCGGCGCUGGUGGCGGUGGUGGUAAGGCUGCCGGAAUGGCCAAUGGUGGCAAGUAGCCGGGU
..........((((((((((---..........((((..(((.(((.((.(((.....))).)))))....)))..))))....((((....)))).)))))))))). ( -45.90)
>DroMoj_CAF1 30437 100 + 1
--GCUGCUGCUGCUGCUGCU---GAAGUAGUAAUCGGUGGCUACGCUGGGCGCCGGUGGUGGCGGUGGCAG---UGCCGGGGCCGGCAGUGGCGGCAAGUAGCCAGGC
--(((((((((((..(((((---...........(((((....)))))(((.((((((.((.(...).)).---)))))).))))))))..))))).))))))..... ( -56.30)
>DroAna_CAF1 24751 105 + 1
GUGCGGGUGCUCCGGCUGCU---GAAGUAGUAGUCGGUGGCAACACUAGGCGCCGGAGGUGGUGGAGGCAAUACCGCCGGUACGGGUAGUGGCGGCAGAUAGCCUGGC
...(((((.(((((((((((---(...)))))(((((((....)))).))))))))))..((((.......))))((((.(((.....))).)))).....))))).. ( -46.70)
>consensus
GUCCGUGUGCUCCGGCUGCU___GAAGUAAUAAUCGGUGGCUACACUCGGCGCCGGUGGCGGUGGUGGUAAGGCUGCCGGAACGGCCAAUGGCGGCAAAUAGCCGGGU
.......(((..(.((((((............(((((((.(.......).))))))))))))).)..))).....((((..........))))(((.....))).... (-27.51 = -26.18 +  -1.33)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 3

Location 13,309,296 – 13,309,416
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.77
Mean single sequence MFE -52.65
Consensus MFE -30.81
Energy contribution -31.02
Covariance contribution 0.21
Combinations/Pair 1.56
Mean z-score -1.50
Structure conservation index 0.59
SVM decision value 0.23
SVM RNA-class probability 0.646514
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13309296 120 + 22407834
AAUAAUCGGUGGCUACACUCGGCGCCGGUGGCGGUGGUGGUAAGGCUGCCGGAAUGGCCAAUGGUGGCAAAUAGCCGGGUGAAGUUCCCGCUGAUGCUAACAGCGGUGUCGGCGAGGCAU
.....((((..(((.((((((((.((((..((..((....))..))..))))....((((....)))).....)))))))).)))..))(((((((((......)))))))))))..... ( -54.80)
>DroVir_CAF1 26322 117 + 1
AAUAAUCGGUGGCUACGCUCGGCGCUGGUGGCGGUGGUGGCAG---CACCGGUUCCGGCAGAGGCGGCAGAUAGCCGGGUGAGCUGCCCGCUGAUGCUAAUAGCGGUGUGGGCGACGCGU
........((((((.((((((((.(((.((.(..((.(((.((---(....)))))).))..).)).)))...)))))))))))(((((((...(((.....)))..))))))).))).. ( -53.30)
>DroGri_CAF1 26635 117 + 1
AGUAGUCGGUGGCUACGCUUGGCGCCGGUGGUGGCGGUGGCAG---UUCCGGUGCCGGCAGUGGUGGCAGAUAACCCGGCGAACUGCUGUCCGAUCCCAACAGCGGUGUGGGUGAGGCGU
.(((((.....)))))(((((.(((((.((.(((((.(((...---..))).))))).)).))))).).....(((((....((((((((.........)))))))).))))).)))).. ( -52.00)
>DroWil_CAF1 29070 120 + 1
AAUAGUCAGUGGCUACACUUGGCGCCGGCGGCGGUGGUGGUAAUGCUGGUGGCACAGGUAACGGCGGUAAAUAACCAGGAGAACUUCCCGCUGAAGCUAAGAGCGGUGUGGGUGAGGCAU
...........(((.(((.(.(((((..((((((((((..((.(((((...((....))..))))).))....))))(((....)))))))))..((.....))))))).)))).))).. ( -38.50)
>DroMoj_CAF1 30460 117 + 1
AGUAAUCGGUGGCUACGCUGGGCGCCGGUGGUGGCGGUGGCAG---UGCCGGGGCCGGCAGUGGCGGCAAGUAGCCAGGCGAGCUGCCCGUUGACGAGAGCAGCGGUGUGGGCGACGUCU
.........(((((((....(.(((((.((.((((..((((..---.))))..)))).)).))))).)..)))))))((((.((..(((((((.(....))))))).)..).)..)))). ( -58.80)
>DroAna_CAF1 24776 120 + 1
AGUAGUCGGUGGCAACACUAGGCGCCGGAGGUGGUGGAGGCAAUACCGCCGGUACGGGUAGUGGCGGCAGAUAGCCUGGCGAGCUGCCCGCUGAGGCUAGCAGGGGCGUCGGCGAGGCAU
....(((((((....)))).)))(((...(((((((.......))))))).....(((((((..((.(((.....))).)).)))))))(((((.(((......))).)))))..))).. ( -58.50)
>consensus
AAUAAUCGGUGGCUACACUCGGCGCCGGUGGCGGUGGUGGCAA___UGCCGGUACCGGCAGUGGCGGCAAAUAGCCAGGCGAACUGCCCGCUGAUGCUAACAGCGGUGUGGGCGAGGCAU
.....(((.(.((..((((((((((((.((.(.(((.((((......)))).))).).)).)))))........)))))))......((((((.......)))))).)).).)))..... (-30.81 = -31.02 +   0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:33 2006