miRNA display CGI


Results 1 - 20 of 52 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
3731 3' -58.5 NC_001650.1 + 82532 1.1 0.001627
Target:  5'- cUCGGGGUUCUGCAGGAAGGGGCUCACg -3'
miRNA:   3'- -AGCCCCAAGACGUCCUUCCCCGAGUG- -5'
3731 3' -58.5 NC_001650.1 + 88714 0.75 0.366469
Target:  5'- gCGGGG----GCGGGAGGGGGCUCc- -3'
miRNA:   3'- aGCCCCaagaCGUCCUUCCCCGAGug -5'
3731 3' -58.5 NC_001650.1 + 35676 0.73 0.433075
Target:  5'- -aGGGGUUCgu--GGAccuccuggccgGGGGGCUCACg -3'
miRNA:   3'- agCCCCAAGacguCCU-----------UCCCCGAGUG- -5'
3731 3' -58.5 NC_001650.1 + 77947 0.73 0.459808
Target:  5'- gCGGGGgcggCUGCgAGGcaccGAGGGGCcgUCGCg -3'
miRNA:   3'- aGCCCCaa--GACG-UCC----UUCCCCG--AGUG- -5'
3731 3' -58.5 NC_001650.1 + 88405 0.73 0.459808
Target:  5'- -gGGGGUgguggCgGCGGGGAGGGGgaguaCUCACc -3'
miRNA:   3'- agCCCCAa----GaCGUCCUUCCCC-----GAGUG- -5'
3731 3' -58.5 NC_001650.1 + 60188 0.72 0.478109
Target:  5'- cCGGGG-UCUGCGGGcGGcGGGUcagCACg -3'
miRNA:   3'- aGCCCCaAGACGUCCuUC-CCCGa--GUG- -5'
3731 3' -58.5 NC_001650.1 + 152541 0.72 0.478109
Target:  5'- aCGGGGaagugagagUUCUGCAGGGacAGGGGCc--- -3'
miRNA:   3'- aGCCCC---------AAGACGUCCU--UCCCCGagug -5'
3731 3' -58.5 NC_001650.1 + 46910 0.72 0.506209
Target:  5'- gUGGGG--CUG-GGGggGGGGUUCGCg -3'
miRNA:   3'- aGCCCCaaGACgUCCuuCCCCGAGUG- -5'
3731 3' -58.5 NC_001650.1 + 112765 0.71 0.554498
Target:  5'- gUGGGcGUUCUGUGGGggGGcuGCUCGu -3'
miRNA:   3'- aGCCC-CAAGACGUCCuuCCc-CGAGUg -5'
3731 3' -58.5 NC_001650.1 + 126481 0.71 0.554498
Target:  5'- aCGGGGguccgUCgagGaCGGGGAGGGGuCUUAUg -3'
miRNA:   3'- aGCCCCa----AGa--C-GUCCUUCCCC-GAGUG- -5'
3731 3' -58.5 NC_001650.1 + 57075 0.71 0.574208
Target:  5'- aCGGGGUUC-GCAGGcuccGGGGCcCGg -3'
miRNA:   3'- aGCCCCAAGaCGUCCuu--CCCCGaGUg -5'
3731 3' -58.5 NC_001650.1 + 89467 0.7 0.584125
Target:  5'- cCGGGGUcCUGCgcugggccgccgAGGc-GGGGUUCGCg -3'
miRNA:   3'- aGCCCCAaGACG------------UCCuuCCCCGAGUG- -5'
3731 3' -58.5 NC_001650.1 + 28806 0.7 0.584125
Target:  5'- -gGGGGgaggagagGUGGGGAGGGGcCUCACc -3'
miRNA:   3'- agCCCCaaga----CGUCCUUCCCC-GAGUG- -5'
3731 3' -58.5 NC_001650.1 + 51594 0.7 0.614049
Target:  5'- aUGGGGgaggccgcCUGCAGGuuGGGGGCcagCGCc -3'
miRNA:   3'- aGCCCCaa------GACGUCCu-UCCCCGa--GUG- -5'
3731 3' -58.5 NC_001650.1 + 100721 0.7 0.614049
Target:  5'- aUCGGGcgcCUGCAGGGagaccgcaaAGGGGgaCACg -3'
miRNA:   3'- -AGCCCcaaGACGUCCU---------UCCCCgaGUG- -5'
3731 3' -58.5 NC_001650.1 + 37347 0.7 0.624059
Target:  5'- aCGGGGUUCUGCGacGAGcuGGccGCUCACa -3'
miRNA:   3'- aGCCCCAAGACGUccUUC--CC--CGAGUG- -5'
3731 3' -58.5 NC_001650.1 + 122146 0.69 0.664083
Target:  5'- gCGGGGgcg-GCGGGAGGGGGag-ACg -3'
miRNA:   3'- aGCCCCaagaCGUCCUUCCCCgagUG- -5'
3731 3' -58.5 NC_001650.1 + 28588 0.69 0.674047
Target:  5'- gCGGGGcUCguggugaGCGGGGucacGGGGGCgCGCg -3'
miRNA:   3'- aGCCCCaAGa------CGUCCU----UCCCCGaGUG- -5'
3731 3' -58.5 NC_001650.1 + 154050 0.69 0.683978
Target:  5'- gCGGGuGUUCUGgAGGAGGugcuGGaGCUCGa -3'
miRNA:   3'- aGCCC-CAAGACgUCCUUC----CC-CGAGUg -5'
3731 3' -58.5 NC_001650.1 + 76700 0.69 0.683978
Target:  5'- gUCGGcGUggUGCAGGAacuugaccggcaGGGGGCUgCGCu -3'
miRNA:   3'- -AGCCcCAagACGUCCU------------UCCCCGA-GUG- -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.