miRNA display CGI


Results 1 - 20 of 24 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
23109 3' -66.9 NC_005178.1 + 34830 0.71 0.06343
Target:  5'- cUCgCCCAGGGCggcguucagcaGCgCGGCGcggguuuccuucggcAGGGCCGa -3'
miRNA:   3'- aAGgGGGUCCCG-----------CG-GCCGU---------------UCCCGGC- -5'
23109 3' -66.9 NC_005178.1 + 9417 0.66 0.154674
Target:  5'- --gCCCCuGGGCGCCGcCAucGGuGCCa -3'
miRNA:   3'- aagGGGGuCCCGCGGCcGUu-CC-CGGc -5'
23109 3' -66.9 NC_005178.1 + 19656 0.66 0.139032
Target:  5'- -cCUgCCAGGcGCGCUGGCGuaccGGGUCc -3'
miRNA:   3'- aaGGgGGUCC-CGCGGCCGUu---CCCGGc -5'
23109 3' -66.9 NC_005178.1 + 6476 0.66 0.135355
Target:  5'- gUUCCUCCAGGGCaGCaaaacccagcggCGGCGAcgccuGGCCa -3'
miRNA:   3'- -AAGGGGGUCCCG-CG------------GCCGUUc----CCGGc -5'
23109 3' -66.9 NC_005178.1 + 34741 0.66 0.133909
Target:  5'- -aCCCCCuggcGGGCaucggcgaccaguuGCUGGCGguugguuucgaccAGGGCCa -3'
miRNA:   3'- aaGGGGGu---CCCG--------------CGGCCGU-------------UCCCGGc -5'
23109 3' -66.9 NC_005178.1 + 6675 0.66 0.131767
Target:  5'- gUCUUCCAGGGCGCucugguggaCGGCuGGGuaCGa -3'
miRNA:   3'- aAGGGGGUCCCGCG---------GCCGuUCCcgGC- -5'
23109 3' -66.9 NC_005178.1 + 21172 0.67 0.121524
Target:  5'- cUgCCCCAGGGCGuaGGCGcc-GCCGc -3'
miRNA:   3'- aAgGGGGUCCCGCggCCGUuccCGGC- -5'
23109 3' -66.9 NC_005178.1 + 8998 0.67 0.115112
Target:  5'- -gCCCCCGGuGGCG-CGGCGGacGGCCc -3'
miRNA:   3'- aaGGGGGUC-CCGCgGCCGUUc-CCGGc -5'
23109 3' -66.9 NC_005178.1 + 5784 0.68 0.109017
Target:  5'- -gCCCCCuguAGGucguCGCCGGCAuuaccucGGGCCa -3'
miRNA:   3'- aaGGGGG---UCCc---GCGGCCGUu------CCCGGc -5'
23109 3' -66.9 NC_005178.1 + 14449 0.68 0.092501
Target:  5'- --gCgCCGGGGUGCCGGagcuggucAGGGCCa -3'
miRNA:   3'- aagGgGGUCCCGCGGCCgu------UCCCGGc -5'
23109 3' -66.9 NC_005178.1 + 20655 0.69 0.080578
Target:  5'- -gCCUcggCCAGGGCGCCGaGCAGcucGGCCu -3'
miRNA:   3'- aaGGG---GGUCCCGCGGC-CGUUc--CCGGc -5'
23109 3' -66.9 NC_005178.1 + 20843 0.7 0.070132
Target:  5'- ----aCCAGGGCGCCGGCucaguuGGGCg- -3'
miRNA:   3'- aagggGGUCCCGCGGCCGuu----CCCGgc -5'
23109 3' -66.9 NC_005178.1 + 26402 0.72 0.051544
Target:  5'- ---gCCCAGGGCGgCGGCcAGGGCg- -3'
miRNA:   3'- aaggGGGUCCCGCgGCCGuUCCCGgc -5'
23109 3' -66.9 NC_005178.1 + 9368 0.73 0.036727
Target:  5'- -gUCgCCAGGGCGCCGGCcGAGGcggauacaGCCGa -3'
miRNA:   3'- aaGGgGGUCCCGCGGCCG-UUCC--------CGGC- -5'
23109 3' -66.9 NC_005178.1 + 14219 1.04 9.2e-05
Target:  5'- cUUCCCCCAGGGCGCCGGCAAGGGCCGc -3'
miRNA:   3'- -AAGGGGGUCCCGCGGCCGUUCCCGGC- -5'
23109 3' -66.9 NC_005178.1 + 27872 0.66 0.154674
Target:  5'- -aCCUCCAGGcCGCCcagGGCAAcuGGGUCa -3'
miRNA:   3'- aaGGGGGUCCcGCGG---CCGUU--CCCGGc -5'
23109 3' -66.9 NC_005178.1 + 28700 0.66 0.146273
Target:  5'- -cCCCgaCCAGauGGCggccgacauguggGCCGGCAAGGGCgGc -3'
miRNA:   3'- aaGGG--GGUC--CCG-------------CGGCCGUUCCCGgC- -5'
23109 3' -66.9 NC_005178.1 + 29416 0.66 0.140529
Target:  5'- aUCCCgCC-GGGCGCUGGCucgguuucacugucgAaggaGGGGCUGc -3'
miRNA:   3'- aAGGG-GGuCCCGCGGCCG---------------U----UCCCGGC- -5'
23109 3' -66.9 NC_005178.1 + 33036 0.66 0.131767
Target:  5'- aUCCugggcggcaCCgAGGGCauuCCGGCAGGuGGCCa -3'
miRNA:   3'- aAGG---------GGgUCCCGc--GGCCGUUC-CCGGc -5'
23109 3' -66.9 NC_005178.1 + 25730 0.67 0.118278
Target:  5'- -gCCUCCAGGcGCGCCuGaaugcugcCAGGGGUCGa -3'
miRNA:   3'- aaGGGGGUCC-CGCGGcC--------GUUCCCGGC- -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.