miRNA display CGI


Results 1 - 20 of 64 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
1537 3' -62.9 NC_001347.2 + 1063 0.68 0.627119
Target:  5'- aACCCCgCGgg-CCGCcgGGCGCCCCuccgaguagcGGCa -3'
miRNA:   3'- -UGGGGgGCagaGGCG--UUGUGGGG----------CCG- -5'
1537 3' -62.9 NC_001347.2 + 2080 0.69 0.552134
Target:  5'- -aCCUgUGcCUCCGCAgccguacgGCGCCgCCGGCg -3'
miRNA:   3'- ugGGGgGCaGAGGCGU--------UGUGG-GGCCG- -5'
1537 3' -62.9 NC_001347.2 + 2394 0.66 0.711496
Target:  5'- cGCCCgCCGcCgaggCCGCGcggcggcuGCugCCCGaGCu -3'
miRNA:   3'- -UGGGgGGCaGa---GGCGU--------UGugGGGC-CG- -5'
1537 3' -62.9 NC_001347.2 + 20343 0.66 0.729794
Target:  5'- cGCCCCaguuCGUCUCCuaauCGACGuguCCgCGGCg -3'
miRNA:   3'- -UGGGGg---GCAGAGGc---GUUGU---GGgGCCG- -5'
1537 3' -62.9 NC_001347.2 + 21642 0.66 0.746911
Target:  5'- -gCCUuuGUCggCGCGGCucuucucGCCCUGGCg -3'
miRNA:   3'- ugGGGggCAGagGCGUUG-------UGGGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 21745 0.67 0.655449
Target:  5'- uACCgucggUCCUGUCUCUGCucuGCGCUaCGGCg -3'
miRNA:   3'- -UGG-----GGGGCAGAGGCGu--UGUGGgGCCG- -5'
1537 3' -62.9 NC_001347.2 + 23266 0.66 0.711496
Target:  5'- cGCCCCCaccC-CCGCGAC-CCUCGcGCg -3'
miRNA:   3'- -UGGGGGgcaGaGGCGUUGuGGGGC-CG- -5'
1537 3' -62.9 NC_001347.2 + 24653 0.69 0.552134
Target:  5'- gGCCUCCUGg---CGC-ACAUCCCGGCg -3'
miRNA:   3'- -UGGGGGGCagagGCGuUGUGGGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 25294 0.68 0.617674
Target:  5'- uGCCCCCCGggaUCCaaGAgACCCggcUGGCg -3'
miRNA:   3'- -UGGGGGGCag-AGGcgUUgUGGG---GCCG- -5'
1537 3' -62.9 NC_001347.2 + 34187 0.72 0.412909
Target:  5'- cACCUgUCGUCgacaugUCGCGACACCCgGGUc -3'
miRNA:   3'- -UGGGgGGCAGa-----GGCGUUGUGGGgCCG- -5'
1537 3' -62.9 NC_001347.2 + 38307 0.68 0.636567
Target:  5'- cGCgCCCCCG-C-CgGCGGCGCCguaCGGCu -3'
miRNA:   3'- -UG-GGGGGCaGaGgCGUUGUGGg--GCCG- -5'
1537 3' -62.9 NC_001347.2 + 38401 0.73 0.323831
Target:  5'- -gCCUCCGUCUCCGUgccgcuCGCCgCUGGCg -3'
miRNA:   3'- ugGGGGGCAGAGGCGuu----GUGG-GGCCG- -5'
1537 3' -62.9 NC_001347.2 + 38650 0.68 0.589417
Target:  5'- cGCCUgCCCGgcgUCUGCAGCGCCaccgucgugCCGGCc -3'
miRNA:   3'- -UGGG-GGGCag-AGGCGUUGUGG---------GGCCG- -5'
1537 3' -62.9 NC_001347.2 + 40233 0.73 0.323831
Target:  5'- cACCCgCCacacgC-CCGCGACACaCCCGGCa -3'
miRNA:   3'- -UGGGgGGca---GaGGCGUUGUG-GGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 40314 0.74 0.287438
Target:  5'- cACCCCCgacacacccaacacaCG-C-CCGCGACACaCCCGGCa -3'
miRNA:   3'- -UGGGGG---------------GCaGaGGCGUUGUG-GGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 41143 0.67 0.655449
Target:  5'- gGCUaCCCCGUCccCCGCGcggaaaucCGCCgCGGCg -3'
miRNA:   3'- -UGG-GGGGCAGa-GGCGUu-------GUGGgGCCG- -5'
1537 3' -62.9 NC_001347.2 + 41487 0.69 0.565114
Target:  5'- cACCCCCaucuccacaucuccaCGUCggaaaCCGCcGCACCCCGcCa -3'
miRNA:   3'- -UGGGGG---------------GCAGa----GGCGuUGUGGGGCcG- -5'
1537 3' -62.9 NC_001347.2 + 46105 0.67 0.655449
Target:  5'- uCCCgCCGUUUCCGaaCAACccACCCgGGUu -3'
miRNA:   3'- uGGGgGGCAGAGGC--GUUG--UGGGgCCG- -5'
1537 3' -62.9 NC_001347.2 + 51568 0.66 0.702258
Target:  5'- gGCCCCgCGgggUCUCCuucgcGCAACAuUCCUGGUc -3'
miRNA:   3'- -UGGGGgGC---AGAGG-----CGUUGU-GGGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 66202 0.69 0.552134
Target:  5'- uGCCaCCCGUCgCCGCGcaACACCaCCcGCg -3'
miRNA:   3'- -UGGgGGGCAGaGGCGU--UGUGG-GGcCG- -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.