miRNA display CGI


Results 1 - 20 of 36 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
11921 3' -58.3 NC_003278.1 + 429 0.68 0.269122
Target:  5'- gCUGGUUCACUgaaAGUAcCCAGUaCGGGCGg -3'
miRNA:   3'- -GACCAAGUGG---UCGUcGGUCG-GCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 2769 0.68 0.306227
Target:  5'- aCUGGcgCACCAGCuGCgCGacGCCaGAGCc -3'
miRNA:   3'- -GACCaaGUGGUCGuCG-GU--CGG-CUCGu -5'
11921 3' -58.3 NC_003278.1 + 6500 0.69 0.24799
Target:  5'- gCUGGUagACCGGCAGC-AGCUcgaccuuGAGCGc -3'
miRNA:   3'- -GACCAagUGGUCGUCGgUCGG-------CUCGU- -5'
11921 3' -58.3 NC_003278.1 + 7674 0.66 0.38256
Target:  5'- -cGGUUUcuACCucGCGGCacacggcaUAGCCGAGCGg -3'
miRNA:   3'- gaCCAAG--UGGu-CGUCG--------GUCGGCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 8120 0.71 0.183899
Target:  5'- cCUGcUUCguGCCGGUGGCCAgccaggcGCCGAGCAg -3'
miRNA:   3'- -GACcAAG--UGGUCGUCGGU-------CGGCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 8902 0.72 0.14485
Target:  5'- cCUGGUugacugcauagaucgUCGCCAGCGGCaGGUCGAGgCGa -3'
miRNA:   3'- -GACCA---------------AGUGGUCGUCGgUCGGCUC-GU- -5'
11921 3' -58.3 NC_003278.1 + 8998 0.72 0.155475
Target:  5'- gCUGGUgaacccUCGCCcgGGCGGCUAugccggcggcaccGCCGAGCAc -3'
miRNA:   3'- -GACCA------AGUGG--UCGUCGGU-------------CGGCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 9044 0.72 0.146089
Target:  5'- -gGGUUCACCAGCgcggggaacugugcGGCCAGuuGgucGGCGg -3'
miRNA:   3'- gaCCAAGUGGUCG--------------UCGGUCggC---UCGU- -5'
11921 3' -58.3 NC_003278.1 + 9073 0.69 0.255327
Target:  5'- -cGGUgcCGCCGGCauAGCCGcCCGGGCGa -3'
miRNA:   3'- gaCCAa-GUGGUCG--UCGGUcGGCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 9773 0.7 0.205881
Target:  5'- -cGGggCGCUguuGCAGCCGGC-GAGCAa -3'
miRNA:   3'- gaCCaaGUGGu--CGUCGGUCGgCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 10180 1.09 0.000228
Target:  5'- aCUGGUUCACCAGCAGCCAGCCGAGCAg -3'
miRNA:   3'- -GACCAAGUGGUCGUCGGUCGGCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 10765 0.69 0.248649
Target:  5'- -gGGUUCACCAGUA-CgGGCUGAGgGa -3'
miRNA:   3'- gaCCAAGUGGUCGUcGgUCGGCUCgU- -5'
11921 3' -58.3 NC_003278.1 + 11931 0.68 0.306227
Target:  5'- -cGGcgaUGCCcaaGGCAGCCAGCCGgucAGCAg -3'
miRNA:   3'- gaCCaa-GUGG---UCGUCGGUCGGC---UCGU- -5'
11921 3' -58.3 NC_003278.1 + 16825 0.66 0.410669
Target:  5'- -cGGaaacUCACCGGacucCGGCCAGUCGcGCAg -3'
miRNA:   3'- gaCCa---AGUGGUC----GUCGGUCGGCuCGU- -5'
11921 3' -58.3 NC_003278.1 + 19491 0.67 0.338642
Target:  5'- -gGGUUgcCGgCGGCGGCCAucuGCUGAGCc -3'
miRNA:   3'- gaCCAA--GUgGUCGUCGGU---CGGCUCGu -5'
11921 3' -58.3 NC_003278.1 + 20099 0.66 0.410669
Target:  5'- -aGGUccaugUCGCCcGCGGCUgccaGGuuGAGCAu -3'
miRNA:   3'- gaCCA-----AGUGGuCGUCGG----UCggCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 20329 0.67 0.347126
Target:  5'- cCUGGa-CGCCAGC-GUU-GCCGAGCAg -3'
miRNA:   3'- -GACCaaGUGGUCGuCGGuCGGCUCGU- -5'
11921 3' -58.3 NC_003278.1 + 21031 0.71 0.169153
Target:  5'- -aGGgcggUCACCAGCgggccgaucaacaGGCCGGCC-AGCAu -3'
miRNA:   3'- gaCCa---AGUGGUCG-------------UCGGUCGGcUCGU- -5'
11921 3' -58.3 NC_003278.1 + 21442 0.71 0.17936
Target:  5'- -gGGUUCACCA-UGGCCGGCCuGGCc -3'
miRNA:   3'- gaCCAAGUGGUcGUCGGUCGGcUCGu -5'
11921 3' -58.3 NC_003278.1 + 21467 0.67 0.347126
Target:  5'- -aGGgccucggCGCCGGCcaGGCCGGCCcgcuGGGCGu -3'
miRNA:   3'- gaCCaa-----GUGGUCG--UCGGUCGG----CUCGU- -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.