miRNA display CGI


Results 1 - 20 of 37 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
27433 3' -58.5 NC_005869.1 + 31976 0.66 0.387782
Target:  5'- cCCcGGGCcgGCGGCGaucuaaaccagauccGGcCCUUCGAGCc -3'
miRNA:   3'- aGGuUCCG--CGUCGU---------------CC-GGAAGCUCGu -5'
27433 3' -58.5 NC_005869.1 + 9042 0.66 0.384092
Target:  5'- gUCCGAGGUGUgcauccAGCGGGCCagcugcUCGucGCu -3'
miRNA:   3'- -AGGUUCCGCG------UCGUCCGGa-----AGCu-CGu -5'
27433 3' -58.5 NC_005869.1 + 25530 0.66 0.384092
Target:  5'- gCCGAGGCcgcggaggccgGCAcGCGGGggcuCCUgcUCGAGCGc -3'
miRNA:   3'- aGGUUCCG-----------CGU-CGUCC----GGA--AGCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 25344 0.66 0.384092
Target:  5'- gCCAuggGGGUcugGCAGCAGuGCC-UCGAGg- -3'
miRNA:   3'- aGGU---UCCG---CGUCGUC-CGGaAGCUCgu -5'
27433 3' -58.5 NC_005869.1 + 17212 0.66 0.374971
Target:  5'- gCCAcGGGCgGCAGUgGGGUCUguaCGGGCAg -3'
miRNA:   3'- aGGU-UCCG-CGUCG-UCCGGAa--GCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 8403 0.66 0.374971
Target:  5'- cCCAgAGGgGCGGCGGGCacUCGcGGUAg -3'
miRNA:   3'- aGGU-UCCgCGUCGUCCGgaAGC-UCGU- -5'
27433 3' -58.5 NC_005869.1 + 15346 0.66 0.374067
Target:  5'- --gGGGGCGCAucuuauuGUGGGCCacggCGGGCAg -3'
miRNA:   3'- aggUUCCGCGU-------CGUCCGGaa--GCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 12361 0.66 0.35805
Target:  5'- cCCuguGGGgGCuGCAGGCCcccgcuggggagcgCGGGCAc -3'
miRNA:   3'- aGGu--UCCgCGuCGUCCGGaa------------GCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 24410 0.66 0.357175
Target:  5'- cCCccGGCGCAGCcgcggAGGCCgcCGAgGCGc -3'
miRNA:   3'- aGGuuCCGCGUCG-----UCCGGaaGCU-CGU- -5'
27433 3' -58.5 NC_005869.1 + 7790 0.67 0.339979
Target:  5'- gCCGAuGGCGCGcuucuGCGGGCa---GAGCAu -3'
miRNA:   3'- aGGUU-CCGCGU-----CGUCCGgaagCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 7067 0.67 0.339979
Target:  5'- gUCCuGGGCGCAGUAgcgcaggguGGCCUggacgaugUCGuaAGCGu -3'
miRNA:   3'- -AGGuUCCGCGUCGU---------CCGGA--------AGC--UCGU- -5'
27433 3' -58.5 NC_005869.1 + 19193 0.67 0.339979
Target:  5'- aCCAGGGUGUuguuGguGGCCUgcugcagGAGCu -3'
miRNA:   3'- aGGUUCCGCGu---CguCCGGAag-----CUCGu -5'
27433 3' -58.5 NC_005869.1 + 16628 0.67 0.339979
Target:  5'- aCCGGGGCGC-GCGGGgUgggGGGCAc -3'
miRNA:   3'- aGGUUCCGCGuCGUCCgGaagCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 12088 0.67 0.339979
Target:  5'- cCCAGGacGUGCGGCAGGUgaUCGcccAGCGc -3'
miRNA:   3'- aGGUUC--CGCGUCGUCCGgaAGC---UCGU- -5'
27433 3' -58.5 NC_005869.1 + 21614 0.67 0.331608
Target:  5'- aCCAGGaGCaGCAGCA-GCCgggugUUGGGCGu -3'
miRNA:   3'- aGGUUC-CG-CGUCGUcCGGa----AGCUCGU- -5'
27433 3' -58.5 NC_005869.1 + 26763 0.67 0.331608
Target:  5'- -gCAAGGcCGCcGC-GGCCUaCGAGCu -3'
miRNA:   3'- agGUUCC-GCGuCGuCCGGAaGCUCGu -5'
27433 3' -58.5 NC_005869.1 + 12696 0.67 0.323391
Target:  5'- aUCCugcgcuacGUGCAGCAGGCCgu-GAGCc -3'
miRNA:   3'- -AGGuuc-----CGCGUCGUCCGGaagCUCGu -5'
27433 3' -58.5 NC_005869.1 + 8378 0.68 0.284592
Target:  5'- -gCGAGGCGCAGgAGGUagcagUGAGCc -3'
miRNA:   3'- agGUUCCGCGUCgUCCGgaa--GCUCGu -5'
27433 3' -58.5 NC_005869.1 + 20705 0.68 0.284592
Target:  5'- cUCCAgggaggagcgggAGGCGCGGCGgcggcGGCCggCG-GCGg -3'
miRNA:   3'- -AGGU------------UCCGCGUCGU-----CCGGaaGCuCGU- -5'
27433 3' -58.5 NC_005869.1 + 15476 0.68 0.277288
Target:  5'- cUCCuGGGCgGCGGCGGGCgCUU--GGCGg -3'
miRNA:   3'- -AGGuUCCG-CGUCGUCCG-GAAgcUCGU- -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.