miRNA display CGI


Results 1 - 20 of 60 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
23083 3' -55.4 NC_005178.1 + 8611 0.66 0.654062
Target:  5'- gCCGGAAGUcuCCGGCCaAGGUcaCGCaCGAu -3'
miRNA:   3'- -GGCCUUUAccGGCUGG-UCUA--GCG-GCU- -5'
23083 3' -55.4 NC_005178.1 + 31230 0.66 0.654062
Target:  5'- cCCGGAcugGGgCGA-CAGcAUCGUCGAg -3'
miRNA:   3'- -GGCCUuuaCCgGCUgGUC-UAGCGGCU- -5'
23083 3' -55.4 NC_005178.1 + 12929 0.66 0.654062
Target:  5'- gCUGGAGgacGUGGCgCG-CCAGGUgcugGCCGGc -3'
miRNA:   3'- -GGCCUU---UACCG-GCuGGUCUAg---CGGCU- -5'
23083 3' -55.4 NC_005178.1 + 34851 0.66 0.652947
Target:  5'- aCCGGGc-UGGauuccgcCCGACCGGA-CGCCu- -3'
miRNA:   3'- -GGCCUuuACC-------GGCUGGUCUaGCGGcu -5'
23083 3' -55.4 NC_005178.1 + 5063 0.66 0.64291
Target:  5'- -aGGAAAUGcuGCCGACCAa---GCUGAa -3'
miRNA:   3'- ggCCUUUAC--CGGCUGGUcuagCGGCU- -5'
23083 3' -55.4 NC_005178.1 + 31903 0.66 0.631749
Target:  5'- gCCGG-GAUGGCgCuGCCGGucaucggccAUCGCUGAu -3'
miRNA:   3'- -GGCCuUUACCG-GcUGGUC---------UAGCGGCU- -5'
23083 3' -55.4 NC_005178.1 + 3435 0.66 0.631749
Target:  5'- uCCGG-GAUGGUCcACCGGccUgGCCGAg -3'
miRNA:   3'- -GGCCuUUACCGGcUGGUCu-AgCGGCU- -5'
23083 3' -55.4 NC_005178.1 + 28543 0.66 0.620587
Target:  5'- aCUGGGcgggGGCCGuccgccgcgccACCGGGggcgUCGCCGGc -3'
miRNA:   3'- -GGCCUuua-CCGGC-----------UGGUCU----AGCGGCU- -5'
23083 3' -55.4 NC_005178.1 + 24601 0.66 0.620587
Target:  5'- aCUGGGucaccaGGCCGGCCAGcaccuggcgCGCCa- -3'
miRNA:   3'- -GGCCUuua---CCGGCUGGUCua-------GCGGcu -5'
23083 3' -55.4 NC_005178.1 + 11873 0.66 0.620587
Target:  5'- aCCGGGucGAUGGCCGcgAgCAGuUUGCCc- -3'
miRNA:   3'- -GGCCU--UUACCGGC--UgGUCuAGCGGcu -5'
23083 3' -55.4 NC_005178.1 + 3416 0.66 0.598305
Target:  5'- cCCGGAAGUcccGGCCGguguagACgAGAUaaaggaugugCGCCGGg -3'
miRNA:   3'- -GGCCUUUA---CCGGC------UGgUCUA----------GCGGCU- -5'
23083 3' -55.4 NC_005178.1 + 2086 0.66 0.594972
Target:  5'- gCGGAAcUGGCCGGgCGGGUacggcuuaccuuggCGCCc- -3'
miRNA:   3'- gGCCUUuACCGGCUgGUCUA--------------GCGGcu -5'
23083 3' -55.4 NC_005178.1 + 20861 0.67 0.587204
Target:  5'- uUGGGcGAUGccugcGCCGGCCuGAUCGCCc- -3'
miRNA:   3'- gGCCU-UUAC-----CGGCUGGuCUAGCGGcu -5'
23083 3' -55.4 NC_005178.1 + 13601 0.67 0.587204
Target:  5'- gCUGGAugcucAUGGCCGAgacaucuugaauCCAGcgccauUUGCCGAg -3'
miRNA:   3'- -GGCCUu----UACCGGCU------------GGUCu-----AGCGGCU- -5'
23083 3' -55.4 NC_005178.1 + 26388 0.67 0.576142
Target:  5'- aCCGGcAAGUucacGGuuGACCAGAUCGagcaGGu -3'
miRNA:   3'- -GGCC-UUUA----CCggCUGGUCUAGCgg--CU- -5'
23083 3' -55.4 NC_005178.1 + 32725 0.67 0.565127
Target:  5'- gUGGAc-UGGCCGACCguGGAUagcUGCCGc -3'
miRNA:   3'- gGCCUuuACCGGCUGG--UCUA---GCGGCu -5'
23083 3' -55.4 NC_005178.1 + 9457 0.67 0.558544
Target:  5'- cCCGGAAagcagagacgccccuAgcUGGCgggucgccauccUGGCCAGGUCGCCa- -3'
miRNA:   3'- -GGCCUU---------------U--ACCG------------GCUGGUCUAGCGGcu -5'
23083 3' -55.4 NC_005178.1 + 36771 0.67 0.554168
Target:  5'- gCGGAGGUGGCUaGGCUgcuuGAUaGCCGGc -3'
miRNA:   3'- gGCCUUUACCGG-CUGGu---CUAgCGGCU- -5'
23083 3' -55.4 NC_005178.1 + 14075 0.67 0.543272
Target:  5'- gCCGGccgagcAGcgGGCCGGCUucg-CGCCGGg -3'
miRNA:   3'- -GGCC------UUuaCCGGCUGGucuaGCGGCU- -5'
23083 3' -55.4 NC_005178.1 + 31678 0.67 0.543272
Target:  5'- gCUGGAcGAUGGgCGGCC-GAggGCCGGu -3'
miRNA:   3'- -GGCCU-UUACCgGCUGGuCUagCGGCU- -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.