Locus 5061

Sequence ID 3R_DroMel_CAF1
Location 13,331,533 – 13,331,674
Length 141
Max. P 0.929632
window8254 window8255

overview

Window 4

Location 13,331,533 – 13,331,638
Length 105
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 76.44
Mean single sequence MFE -44.95
Consensus MFE -30.38
Energy contribution -29.22
Covariance contribution -1.16
Combinations/Pair 1.42
Mean z-score -1.71
Structure conservation index 0.68
SVM decision value 1.20
SVM RNA-class probability 0.929632
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13331533 105 - 27905053
CGGCGCAGUGUCGACUGCUCAGCCGGCGUUGCAGUCGGCGUCGUUCGAUUGUGGGCCACGAGUGGCAACAGUUGCAGUAACGGCCCCAAAAAUGGGAGGCGCUGG
((((((...(((((((((...(....)...)))))))))(((((((((((((..((((....)))).)))))))....))))))((((....))))..)))))). ( -51.40)
>DroPse_CAF1 99506 89 - 1
CGGCGCUGCGUUGACUGCGGAGCUGGCAAAGCAGUCGGCGCCGUUCGAUUGGGGGCCACGUGUGGCAACAGUUACAGUUACAGCCCGGA----------------
(((.((((...(((((((((.((((((......)))))).)))...(((((...((((....))))..))))).)))))))))))))..---------------- ( -39.50)
>DroSec_CAF1 83980 105 - 1
CGGCGCAGUGCCGACUGCUCAGCCGGCGCCGCAGUCGGCGUCGUUCGAUUGUGGGCCACGAGUGGCAACAGUUGCAGUAACGGCCCCAAAAGUGGGAGGCGCUGG
((((((...(((((((((.....((((((((....))))))))...((((((..((((....)))).)))))))))))..))))((((....))))..)))))). ( -54.20)
>DroEre_CAF1 90231 105 - 1
CGGCGCAGUGUCGACUGCUCAGUCGGCGUCGCAGUCGGCGUCGUUCGAUUGUGGGCCAAGAGUGGCAACAGUUGCAGUAACGGCCCCAAAAGUGGGAGGCACUGG
.....(((((((..(..(((((((((((.(((.....))).)).))))))).(((((.....((....))((((...)))))))))....))..)..))))))). ( -45.20)
>DroAna_CAF1 103605 100 - 1
UGACGCUGCGUUGACUGCGAAGUCGGCGGUGCUGCUGGCGUCGUUCGAUUGUGGGCCACGUGUGGCAACAGUUGCAGUAACGGCCUCAACGG-----GGCUCGAA
.((.(((.((((((.......(((((((....)))))))(((((((((((((..((((....)))).)))))))....)))))).)))))).-----)))))... ( -43.10)
>DroPer_CAF1 93643 89 - 1
CGGCGCUGCGUUGACAGCGGAGCUGGCAGAGCAGUCGGCGCCGUUCGAUUGGGGGCCACGUGUGGCAACAGUUACAGUUACAGCCUGGA----------------
(((.((((...(((((((((.((((((......)))))).))))).(((((...((((....))))..)))))...)))))))))))..---------------- ( -36.30)
>consensus
CGGCGCAGCGUCGACUGCGCAGCCGGCGGAGCAGUCGGCGUCGUUCGAUUGUGGGCCACGAGUGGCAACAGUUGCAGUAACGGCCCCAAAAG_____GGC_CUGG
((((((((......))))...((((((......)))))))))).........(((((....(((((....)))))......)))))................... (-30.38 = -29.22 +  -1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,331,560 – 13,331,674
Length 114
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 80.22
Mean single sequence MFE -47.22
Consensus MFE -31.69
Energy contribution -30.28
Covariance contribution -1.41
Combinations/Pair 1.36
Mean z-score -1.51
Structure conservation index 0.67
SVM decision value 0.31
SVM RNA-class probability 0.682097
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13331560 114 - 27905053
GCGAGAGAAGAGAAAUGCCGAAGGAUGCGCUGACGCCGGCGCAGUGUCGACUGCUCAGCCGGCGUUGCAGUCGGCGUCGUUCGAUUGUGGGCCACGAGUGGCAACAGUUGCAGU
((.......(((..(((((((....(((...((((((((((((((....)))))...)))))))))))).)))))))..)))((((((..((((....)))).))))))))... ( -54.60)
>DroPse_CAF1 99517 108 - 1
GCGAGAGAAGAGAAACACCACAGGCUGC------GUCGGCGCUGCGUUGACUGCGGAGCUGGCAAAGCAGUCGGCGCCGUUCGAUUGGGGGCCACGUGUGGCAACAGUUACAGU
.................(((((((((((------((((((.(((((.....))))).))))))...))))))(((.((.........)).)))...)))))............. ( -39.70)
>DroSec_CAF1 84007 114 - 1
GCGAGAGAAGAGAAACGCCGAAGGAUGCGCUGACGCCGGCGCAGUGCCGACUGCUCAGCCGGCGCCGCAGUCGGCGUCGUUCGAUUGUGGGCCACGAGUGGCAACAGUUGCAGU
((.......(((..(((((((....((((..(.((((((((((((....)))))...)))))))))))).)))))))..)))((((((..((((....)))).))))))))... ( -55.80)
>DroSim_CAF1 88256 114 - 1
GCGAGAGAAGAGAAAUGCCGAAGGAUGCGCUGACGCCGGCGCAGUGCCGACUGCUCAGCCGGCGUCGCAGUCGGCGUCGUUCGAUUGUGGGCCACGAGUGGCAACAGUUGCAGU
((.......(((..(((((((....(((...((((((((((((((....)))))...)))))))))))).)))))))..)))((((((..((((....)))).))))))))... ( -56.20)
>DroAna_CAF1 103627 106 - 1
---ACAAAAGAGUAUC--CUUUG---GGGCUGGCGCUGACGCUGCGUUGACUGCGAAGUCGGCGGUGCUGCUGGCGUCGUUCGAUUGUGGGCCACGUGUGGCAACAGUUGCAGU
---.((((.(.....)--.))))---((((.((((((..(((..((((((((....))))))))..)).)..))))))))))((((((..((((....)))).))))))..... ( -39.20)
>DroPer_CAF1 93654 108 - 1
GCGAGAGAAGAGAAACACCAAAGCCUGC------GUCGGCGCUGCGUUGACAGCGGAGCUGGCAGAGCAGUCGGCGCCGUUCGAUUGGGGGCCACGUGUGGCAACAGUUACAGU
......................((((((------((.(((.((..(((((..((((.((((((......)))))).)))))))))..)).)))))))).)))............ ( -37.80)
>consensus
GCGAGAGAAGAGAAACGCCGAAGGAUGCGCUGACGCCGGCGCAGCGUCGACUGCGCAGCCGGCGGAGCAGUCGGCGUCGUUCGAUUGUGGGCCACGAGUGGCAACAGUUGCAGU
..................................((((((((((......))))...((((((......))))))))))...(((((...((((....))))..)))))))... (-31.69 = -30.28 +  -1.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:16 2006