miRNA display CGI


Results 1 - 20 of 114 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
23274 3' -59.2 NC_005259.1 + 46245 0.66 0.586163
Target:  5'- -uGCCGCCuGAGGCaCGUCGaCcccgAGGGUCu -3'
miRNA:   3'- ugUGGCGG-CUCCG-GCGGCaG----UUCUAG- -5'
23274 3' -59.2 NC_005259.1 + 47953 0.66 0.586163
Target:  5'- gGCGgUGCCGAuGGCCGCCG-CGc---- -3'
miRNA:   3'- -UGUgGCGGCU-CCGGCGGCaGUucuag -5'
23274 3' -59.2 NC_005259.1 + 67176 0.66 0.585112
Target:  5'- cAUGCCGCCGAugaugcccGccucgucucccucGCCGCUGUCGgcgGGGUCg -3'
miRNA:   3'- -UGUGGCGGCU--------C-------------CGGCGGCAGU---UCUAG- -5'
23274 3' -59.2 NC_005259.1 + 11011 0.66 0.585112
Target:  5'- cGCGCCggacgcGCCGAGGCaggaguuCGCCGggu-GGUCa -3'
miRNA:   3'- -UGUGG------CGGCUCCG-------GCGGCaguuCUAG- -5'
23274 3' -59.2 NC_005259.1 + 33539 0.66 0.575673
Target:  5'- cACGCCuGCUGAucGUCGCCgGUCAGGAa- -3'
miRNA:   3'- -UGUGG-CGGCUc-CGGCGG-CAGUUCUag -5'
23274 3' -59.2 NC_005259.1 + 52131 0.66 0.575673
Target:  5'- cGCACCGCCGuccGGCaccuCGCCGaggCAGGcagCg -3'
miRNA:   3'- -UGUGGCGGCu--CCG----GCGGCa--GUUCua-G- -5'
23274 3' -59.2 NC_005259.1 + 2100 0.66 0.575673
Target:  5'- uCAUCGgCGAGGCCaauuggcacacGCuCGcCGAGGUCa -3'
miRNA:   3'- uGUGGCgGCUCCGG-----------CG-GCaGUUCUAG- -5'
23274 3' -59.2 NC_005259.1 + 21292 0.66 0.569399
Target:  5'- -gGCCGauGAGGCCgaacgggagaccuauGCCcguGUCAAGAUCc -3'
miRNA:   3'- ugUGGCggCUCCGG---------------CGG---CAGUUCUAG- -5'
23274 3' -59.2 NC_005259.1 + 31266 0.66 0.565225
Target:  5'- cACGCCGCaguAGGCgGUgG-CGAGAUCu -3'
miRNA:   3'- -UGUGGCGgc-UCCGgCGgCaGUUCUAG- -5'
23274 3' -59.2 NC_005259.1 + 58838 0.66 0.555865
Target:  5'- uCGCCGCCcucggucucacccucGGGCuCGCCGUCGucGUCg -3'
miRNA:   3'- uGUGGCGGc--------------UCCG-GCGGCAGUucUAG- -5'
23274 3' -59.2 NC_005259.1 + 38073 0.66 0.554828
Target:  5'- -aGCCGCCaucgagcauGGCC-CaCGUCGAGAUCc -3'
miRNA:   3'- ugUGGCGGcu-------CCGGcG-GCAGUUCUAG- -5'
23274 3' -59.2 NC_005259.1 + 48524 0.66 0.554828
Target:  5'- cGCACUGCCGAcuucucGG-CGCUGUCGccGGUCu -3'
miRNA:   3'- -UGUGGCGGCU------CCgGCGGCAGUu-CUAG- -5'
23274 3' -59.2 NC_005259.1 + 27830 0.66 0.554828
Target:  5'- gACuuCUGCgCGAGGUagGCCG-CGAGGUCg -3'
miRNA:   3'- -UGu-GGCG-GCUCCGg-CGGCaGUUCUAG- -5'
23274 3' -59.2 NC_005259.1 + 15996 0.66 0.553791
Target:  5'- uCACCGCCGGuGGCCgcauccuGCCGguugaCGAGGg- -3'
miRNA:   3'- uGUGGCGGCU-CCGG-------CGGCa----GUUCUag -5'
23274 3' -59.2 NC_005259.1 + 19532 0.66 0.538314
Target:  5'- uCACCGCCGugcAGGCCGaCgcguaugcccgcagcCGUCGGGAc- -3'
miRNA:   3'- uGUGGCGGC---UCCGGC-G---------------GCAGUUCUag -5'
23274 3' -59.2 NC_005259.1 + 60142 0.66 0.534211
Target:  5'- uGCGCgGCCuuGGCCGCCGccUCAGcGGccUCa -3'
miRNA:   3'- -UGUGgCGGcuCCGGCGGC--AGUU-CU--AG- -5'
23274 3' -59.2 NC_005259.1 + 32365 0.66 0.534211
Target:  5'- -gACCGCCGuguAGGgcgggcacugcCCGCCGUCGcGAUa -3'
miRNA:   3'- ugUGGCGGC---UCC-----------GGCGGCAGUuCUAg -5'
23274 3' -59.2 NC_005259.1 + 46299 0.66 0.534211
Target:  5'- -gGCCGCCGuGGCUGCguUGUUcgcggccccgAGGGUCg -3'
miRNA:   3'- ugUGGCGGCuCCGGCG--GCAG----------UUCUAG- -5'
23274 3' -59.2 NC_005259.1 + 3062 0.67 0.524003
Target:  5'- cUACCGUCGAcgGGCCgagGCCGaCAAGAg- -3'
miRNA:   3'- uGUGGCGGCU--CCGG---CGGCaGUUCUag -5'
23274 3' -59.2 NC_005259.1 + 17984 0.67 0.524003
Target:  5'- gGCugCGCauuGGGCCGCUacacCGAGGUCa -3'
miRNA:   3'- -UGugGCGgc-UCCGGCGGca--GUUCUAG- -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.