miRNA display CGI


Results 1 - 20 of 32 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
22884 3' -52.1 NC_005137.2 + 45 0.68 0.922162
Target:  5'- -gGCGCGUCAaccgcuuguauaaAAGCGCGCGcGUCGu- -3'
miRNA:   3'- ugCGUGCAGUa------------UUCGUGCGC-CAGUuu -5'
22884 3' -52.1 NC_005137.2 + 1654 0.68 0.905513
Target:  5'- -gGCACGUU-UGGGCucggucgguuucgGCGCGGUCAGc -3'
miRNA:   3'- ugCGUGCAGuAUUCG-------------UGCGCCAGUUu -5'
22884 3' -52.1 NC_005137.2 + 18242 0.66 0.974498
Target:  5'- gUGCGCGUCGUucGUACuGCGG-CGc- -3'
miRNA:   3'- uGCGUGCAGUAuuCGUG-CGCCaGUuu -5'
22884 3' -52.1 NC_005137.2 + 18972 0.67 0.935348
Target:  5'- aACGCAUGUUgAUGAGCACgucgcaGCGcGUCAc- -3'
miRNA:   3'- -UGCGUGCAG-UAUUCGUG------CGC-CAGUuu -5'
22884 3' -52.1 NC_005137.2 + 20517 0.66 0.971654
Target:  5'- uGCaCACGUgGUAguugaaacAGCugGCGGUUAGu -3'
miRNA:   3'- -UGcGUGCAgUAU--------UCGugCGCCAGUUu -5'
22884 3' -52.1 NC_005137.2 + 29843 0.69 0.870535
Target:  5'- -aGCuACGauuUCAaAGGCGCGUGGUCAAAc -3'
miRNA:   3'- ugCG-UGC---AGUaUUCGUGCGCCAGUUU- -5'
22884 3' -52.1 NC_005137.2 + 31039 0.71 0.792225
Target:  5'- gGCGCACGaag-AGGCGCGCGGcCGc- -3'
miRNA:   3'- -UGCGUGCaguaUUCGUGCGCCaGUuu -5'
22884 3' -52.1 NC_005137.2 + 33201 0.75 0.583355
Target:  5'- uUGCGCGUCGaaGAGCGCaccGCGGUCGAGa -3'
miRNA:   3'- uGCGUGCAGUa-UUCGUG---CGCCAGUUU- -5'
22884 3' -52.1 NC_005137.2 + 35407 0.69 0.899542
Target:  5'- -aGCACGUCGcgcacAGUGCGCGGgcggCAAAa -3'
miRNA:   3'- ugCGUGCAGUau---UCGUGCGCCa---GUUU- -5'
22884 3' -52.1 NC_005137.2 + 39761 0.67 0.940395
Target:  5'- gACGUcCGUCAUAuuccccGGCACGUGG-CAc- -3'
miRNA:   3'- -UGCGuGCAGUAU------UCGUGCGCCaGUuu -5'
22884 3' -52.1 NC_005137.2 + 60002 0.66 0.974498
Target:  5'- gGCGcCGCGaauUAGGC-CGCGGUCGu- -3'
miRNA:   3'- -UGC-GUGCaguAUUCGuGCGCCAGUuu -5'
22884 3' -52.1 NC_005137.2 + 63652 0.67 0.945179
Target:  5'- cGCGCaucGCGUCGc--GCcCGCGGUCAc- -3'
miRNA:   3'- -UGCG---UGCAGUauuCGuGCGCCAGUuu -5'
22884 3' -52.1 NC_005137.2 + 66051 0.66 0.971654
Target:  5'- -gGCACGUCGgcacGUugGCGGUa--- -3'
miRNA:   3'- ugCGUGCAGUauu-CGugCGCCAguuu -5'
22884 3' -52.1 NC_005137.2 + 66878 1.06 0.007424
Target:  5'- cACGCACGUCAUAAGCACGCGGUCAAAg -3'
miRNA:   3'- -UGCGUGCAGUAUUCGUGCGCCAGUUU- -5'
22884 3' -52.1 NC_005137.2 + 67981 0.68 0.930039
Target:  5'- aACGCACGUCGUcguuGGCcACGCGcgagCAAu -3'
miRNA:   3'- -UGCGUGCAGUAu---UCG-UGCGCca--GUUu -5'
22884 3' -52.1 NC_005137.2 + 69482 0.66 0.965294
Target:  5'- cGCGCGCGUCGUAgGGCuuaaagaaaACGUGGg---- -3'
miRNA:   3'- -UGCGUGCAGUAU-UCG---------UGCGCCaguuu -5'
22884 3' -52.1 NC_005137.2 + 74345 0.69 0.892664
Target:  5'- aGCGC-CGUCGgcAAGCACGaGGUCGc- -3'
miRNA:   3'- -UGCGuGCAGUa-UUCGUGCgCCAGUuu -5'
22884 3' -52.1 NC_005137.2 + 83019 0.67 0.949705
Target:  5'- -aGCGCGUCAUuguGUuguuUGCGGUCGu- -3'
miRNA:   3'- ugCGUGCAGUAuu-CGu---GCGCCAGUuu -5'
22884 3' -52.1 NC_005137.2 + 95163 0.67 0.952297
Target:  5'- -gGCACGguaaaguuuguaAUAGGCACGCGGUg--- -3'
miRNA:   3'- ugCGUGCag----------UAUUCGUGCGCCAguuu -5'
22884 3' -52.1 NC_005137.2 + 100026 0.66 0.974498
Target:  5'- -gGUGCG-CA--AGCACGCGGUCc-- -3'
miRNA:   3'- ugCGUGCaGUauUCGUGCGCCAGuuu -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.