miRNA display CGI


Results 1 - 20 of 30 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
23397 5' -57.3 NC_005259.1 + 4556 0.78 0.163191
Target:  5'- gCGgGCACGAGGUCACGCcgauCGUCGGc -3'
miRNA:   3'- gGCaCGUGCUCCAGUGCGc---GCAGCUc -5'
23397 5' -57.3 NC_005259.1 + 9507 0.8 0.115644
Target:  5'- aCGUGCGCuc-GUCGCGCGCGUCGAc -3'
miRNA:   3'- gGCACGUGcucCAGUGCGCGCAGCUc -5'
23397 5' -57.3 NC_005259.1 + 14857 0.68 0.586085
Target:  5'- gUCGUGCucGCGAGGuUCGCGCuGCc-CGAGc -3'
miRNA:   3'- -GGCACG--UGCUCC-AGUGCG-CGcaGCUC- -5'
23397 5' -57.3 NC_005259.1 + 18860 0.74 0.290833
Target:  5'- gCCGUGCAac-GGUUGCGCGCGUgGGa -3'
miRNA:   3'- -GGCACGUgcuCCAGUGCGCGCAgCUc -5'
23397 5' -57.3 NC_005259.1 + 27504 0.68 0.616447
Target:  5'- aCGcGC-CGAGGUCgacguguccgcacACGC-CGUCGAGg -3'
miRNA:   3'- gGCaCGuGCUCCAG-------------UGCGcGCAGCUC- -5'
23397 5' -57.3 NC_005259.1 + 27847 0.7 0.484655
Target:  5'- ---gGcCGCGAGGUCGCGCGcCGUaCGAc -3'
miRNA:   3'- ggcaC-GUGCUCCAGUGCGC-GCA-GCUc -5'
23397 5' -57.3 NC_005259.1 + 28006 0.72 0.357984
Target:  5'- gCCGggGCGgggucgcCGGGGUUGCGCGCGUUGGc -3'
miRNA:   3'- -GGCa-CGU-------GCUCCAGUGCGCGCAGCUc -5'
23397 5' -57.3 NC_005259.1 + 31072 0.7 0.465332
Target:  5'- aUCGgGUcgGCGAGGUUcccgaGCGCGUCGGGg -3'
miRNA:   3'- -GGCaCG--UGCUCCAGug---CGCGCAGCUC- -5'
23397 5' -57.3 NC_005259.1 + 31905 0.7 0.49446
Target:  5'- cCCG-GCGCGAGcgccucaaucucGUCACGCacucgGgGUCGAGg -3'
miRNA:   3'- -GGCaCGUGCUC------------CAGUGCG-----CgCAGCUC- -5'
23397 5' -57.3 NC_005259.1 + 32484 0.67 0.658453
Target:  5'- gCCGgGCGCGAGGUgguucuguaugaaCAcCGUGagguaGUCGAGg -3'
miRNA:   3'- -GGCaCGUGCUCCA-------------GU-GCGCg----CAGCUC- -5'
23397 5' -57.3 NC_005259.1 + 35585 0.7 0.498408
Target:  5'- cCCGuUGUAgcUGAGGUCgggugcguccuggccACGCuGCGUCGAGu -3'
miRNA:   3'- -GGC-ACGU--GCUCCAG---------------UGCG-CGCAGCUC- -5'
23397 5' -57.3 NC_005259.1 + 36440 0.75 0.257643
Target:  5'- gCGUcGC-CGAGGUCgAC-CGCGUCGAGg -3'
miRNA:   3'- gGCA-CGuGCUCCAG-UGcGCGCAGCUC- -5'
23397 5' -57.3 NC_005259.1 + 40370 0.67 0.669966
Target:  5'- gCCGaggGCAUGAGGUCuuccaucgacacGgGCGCGUuCGGa -3'
miRNA:   3'- -GGCa--CGUGCUCCAG------------UgCGCGCA-GCUc -5'
23397 5' -57.3 NC_005259.1 + 41307 0.67 0.668921
Target:  5'- uCCGUgaGCGCGAGGUCgaccucgaaaaggGCGgUGcCGUCGGa -3'
miRNA:   3'- -GGCA--CGUGCUCCAG-------------UGC-GC-GCAGCUc -5'
23397 5' -57.3 NC_005259.1 + 42945 0.7 0.465332
Target:  5'- gCCGUGgGCGAGGcCGC-CGuUGUCGAa -3'
miRNA:   3'- -GGCACgUGCUCCaGUGcGC-GCAGCUc -5'
23397 5' -57.3 NC_005259.1 + 44134 0.73 0.305018
Target:  5'- gCUGUGCguugaGCGAGGUgaACGUGCgGUCGAGc -3'
miRNA:   3'- -GGCACG-----UGCUCCAg-UGCGCG-CAGCUC- -5'
23397 5' -57.3 NC_005259.1 + 46557 0.67 0.669966
Target:  5'- gCCGaccGCGCcuauGGUCGCG-GCGUCGAc -3'
miRNA:   3'- -GGCa--CGUGcu--CCAGUGCgCGCAGCUc -5'
23397 5' -57.3 NC_005259.1 + 48436 0.67 0.656356
Target:  5'- aCCGagGCGCGAGGcagCGgcagcgcguuccacCGCGCGcCGGGu -3'
miRNA:   3'- -GGCa-CGUGCUCCa--GU--------------GCGCGCaGCUC- -5'
23397 5' -57.3 NC_005259.1 + 51534 0.68 0.617497
Target:  5'- cUCGUGCACGGGGccgggcaagugCACGa-CGUUGGGg -3'
miRNA:   3'- -GGCACGUGCUCCa----------GUGCgcGCAGCUC- -5'
23397 5' -57.3 NC_005259.1 + 52009 0.72 0.390651
Target:  5'- aCCGgaUGCACGAGcGUCaggccgccgcacuGCGCGCugucgccGUCGAGg -3'
miRNA:   3'- -GGC--ACGUGCUC-CAG-------------UGCGCG-------CAGCUC- -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.