miRNA display CGI


Results 1 - 20 of 43 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
23749 3' -54.7 NC_005261.1 + 77774 0.66 0.931394
Target:  5'- gGCGGGGAcGacgaggccuacUACCCC-GGcGAGGGCGCg -3'
miRNA:   3'- gCGCUCUU-C-----------AUGGGGaCC-UUCUCGUG- -5'
23749 3' -54.7 NC_005261.1 + 46064 0.68 0.842425
Target:  5'- aGCGGGAAGggcGCCgCCUcguggccGGAcacGAGCACg -3'
miRNA:   3'- gCGCUCUUCa--UGG-GGA-------CCUu--CUCGUG- -5'
23749 3' -54.7 NC_005261.1 + 136380 0.68 0.851388
Target:  5'- aGCGAGAcgaGGUGCCgggaCUGGggGcGgACg -3'
miRNA:   3'- gCGCUCU---UCAUGGg---GACCuuCuCgUG- -5'
23749 3' -54.7 NC_005261.1 + 23481 0.68 0.862432
Target:  5'- gGCGAGugcgcGGgcCCgCCUGGGcaggcgcgggcccugGGAGCACg -3'
miRNA:   3'- gCGCUCu----UCauGG-GGACCU---------------UCUCGUG- -5'
23749 3' -54.7 NC_005261.1 + 98077 0.68 0.866275
Target:  5'- gGCGGGu-GUGUCCUUGGAgaaucugGGGGCGCg -3'
miRNA:   3'- gCGCUCuuCAUGGGGACCU-------UCUCGUG- -5'
23749 3' -54.7 NC_005261.1 + 98170 0.68 0.866275
Target:  5'- gGCGGGu-GUGUCCUUGGAgccgccgGGGGCGCg -3'
miRNA:   3'- gCGCUCuuCAUGGGGACCU-------UCUCGUG- -5'
23749 3' -54.7 NC_005261.1 + 171 0.67 0.874536
Target:  5'- gGCGGGGcuGGcGCCCCUGGugcucccGGGGCcaGCg -3'
miRNA:   3'- gCGCUCU--UCaUGGGGACCu------UCUCG--UG- -5'
23749 3' -54.7 NC_005261.1 + 82762 0.67 0.874536
Target:  5'- gCGCGGucaAAGUGCUCCggGGAgcggccgaAGAGCGCc -3'
miRNA:   3'- -GCGCUc--UUCAUGGGGa-CCU--------UCUCGUG- -5'
23749 3' -54.7 NC_005261.1 + 137854 0.67 0.874536
Target:  5'- gGCGGGGcuGGcGCCCCUGGugcucccGGGGCcaGCg -3'
miRNA:   3'- gCGCUCU--UCaUGGGGACCu------UCUCG--UG- -5'
23749 3' -54.7 NC_005261.1 + 70428 0.68 0.839939
Target:  5'- aGCaGGggGUuggcgacgucgauCCCCUGGAGGGuGUACg -3'
miRNA:   3'- gCGcUCuuCAu------------GGGGACCUUCU-CGUG- -5'
23749 3' -54.7 NC_005261.1 + 57591 0.69 0.817671
Target:  5'- gCGCGucGAuGUGCCaCCUGGcGGcGCACg -3'
miRNA:   3'- -GCGCu-CUuCAUGG-GGACCuUCuCGUG- -5'
23749 3' -54.7 NC_005261.1 + 29114 0.69 0.808784
Target:  5'- aCGcCGAGggG-AgCCCUGGcgccgGGGGGCGCc -3'
miRNA:   3'- -GC-GCUCuuCaUgGGGACC-----UUCUCGUG- -5'
23749 3' -54.7 NC_005261.1 + 55257 0.76 0.430526
Target:  5'- cCGCGAGGAGgucugcgcCCCCUGGcgcgccggaggcGGGGGCGCu -3'
miRNA:   3'- -GCGCUCUUCau------GGGGACC------------UUCUCGUG- -5'
23749 3' -54.7 NC_005261.1 + 32781 0.71 0.712288
Target:  5'- --gGAGAGGgagGCCCggCUGGggGGGCAa -3'
miRNA:   3'- gcgCUCUUCa--UGGG--GACCuuCUCGUg -5'
23749 3' -54.7 NC_005261.1 + 13651 0.7 0.732466
Target:  5'- gCGCGcGccGUGCCgCCgccgcgGGggGGGCGCg -3'
miRNA:   3'- -GCGCuCuuCAUGG-GGa-----CCuuCUCGUG- -5'
23749 3' -54.7 NC_005261.1 + 1066 0.7 0.76203
Target:  5'- gCGCGGGggGcugGCCCCgcuccaGGgcGAGCcCg -3'
miRNA:   3'- -GCGCUCuuCa--UGGGGa-----CCuuCUCGuG- -5'
23749 3' -54.7 NC_005261.1 + 54170 0.7 0.76203
Target:  5'- uGcCGGGAAG-ACCaaggGGAGGAGCGCg -3'
miRNA:   3'- gC-GCUCUUCaUGGgga-CCUUCUCGUG- -5'
23749 3' -54.7 NC_005261.1 + 56049 0.7 0.771659
Target:  5'- gCGCGAGcgauguucGGGgGCgCCCUGGgcGAGCAg -3'
miRNA:   3'- -GCGCUC--------UUCaUG-GGGACCuuCUCGUg -5'
23749 3' -54.7 NC_005261.1 + 25992 0.7 0.771659
Target:  5'- aCGaUGAGggGUgggGCCCCgGGAgagagAGAGCAa -3'
miRNA:   3'- -GC-GCUCuuCA---UGGGGaCCU-----UCUCGUg -5'
23749 3' -54.7 NC_005261.1 + 88386 0.69 0.79973
Target:  5'- gCGCGcccaAGguGUACCUCgacgGcGAGGAGCACg -3'
miRNA:   3'- -GCGC----UCuuCAUGGGGa---C-CUUCUCGUG- -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.