miRNA display CGI


Results 1 - 20 of 22 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
3768 3' -56.6 NC_001650.1 + 82102 0.66 0.893316
Target:  5'- uGGcCUUCCUGCuCCUACggGGCugGGuuUGAu -3'
miRNA:   3'- -UC-GAAGGACG-GGGUG--UCGugCU--ACUu -5'
3768 3' -56.6 NC_001650.1 + 65646 0.66 0.893316
Target:  5'- ---aUCCUGgCCUCGCAGCugG-UGAGc -3'
miRNA:   3'- ucgaAGGAC-GGGGUGUCGugCuACUU- -5'
3768 3' -56.6 NC_001650.1 + 124472 0.66 0.893316
Target:  5'- ----aCCUGgCCCAgagcCAGCugGAUGAAu -3'
miRNA:   3'- ucgaaGGACgGGGU----GUCGugCUACUU- -5'
3768 3' -56.6 NC_001650.1 + 44373 0.66 0.872242
Target:  5'- uGCUUCCUGaaCC-CAGCACGGa--- -3'
miRNA:   3'- uCGAAGGACggGGuGUCGUGCUacuu -5'
3768 3' -56.6 NC_001650.1 + 89013 0.66 0.857095
Target:  5'- cGCUUCCcGCCCCACuuuGC-CGGg--- -3'
miRNA:   3'- uCGAAGGaCGGGGUGu--CGuGCUacuu -5'
3768 3' -56.6 NC_001650.1 + 180365 0.67 0.84841
Target:  5'- gGGCUUCCUaGCCCCcuacCAGCAuugcaacagacccCGGUGc- -3'
miRNA:   3'- -UCGAAGGA-CGGGGu---GUCGU-------------GCUACuu -5'
3768 3' -56.6 NC_001650.1 + 13658 0.67 0.84841
Target:  5'- gGGCUUCCUaGCCCCcuacCAGCAuugcaacagacccCGGUGc- -3'
miRNA:   3'- -UCGAAGGA-CGGGGu---GUCGU-------------GCUACuu -5'
3768 3' -56.6 NC_001650.1 + 159520 0.67 0.841125
Target:  5'- gGGgUUCCUGCUguggaCCAgGGCGCuGGUGAGc -3'
miRNA:   3'- -UCgAAGGACGG-----GGUgUCGUG-CUACUU- -5'
3768 3' -56.6 NC_001650.1 + 127928 0.67 0.832848
Target:  5'- gGGCcugUUCCUGUCCCACGuGCucaccaaGGUGAAc -3'
miRNA:   3'- -UCG---AAGGACGGGGUGU-CGug-----CUACUU- -5'
3768 3' -56.6 NC_001650.1 + 12798 0.67 0.815747
Target:  5'- gGGCcUCCggaGCCCCAUggcuGGCAgGGUGGu -3'
miRNA:   3'- -UCGaAGGa--CGGGGUG----UCGUgCUACUu -5'
3768 3' -56.6 NC_001650.1 + 179505 0.67 0.815747
Target:  5'- gGGCcUCCggaGCCCCAUggcuGGCAgGGUGGu -3'
miRNA:   3'- -UCGaAGGa--CGGGGUG----UCGUgCUACUu -5'
3768 3' -56.6 NC_001650.1 + 46183 0.69 0.701451
Target:  5'- uGGCUcCCUGCCCaCcCGGCAUGAgauaUGGAa -3'
miRNA:   3'- -UCGAaGGACGGG-GuGUCGUGCU----ACUU- -5'
3768 3' -56.6 NC_001650.1 + 146617 0.7 0.69132
Target:  5'- cGCaUCUggUGCCCCGCGGC-CGAUGc- -3'
miRNA:   3'- uCGaAGG--ACGGGGUGUCGuGCUACuu -5'
3768 3' -56.6 NC_001650.1 + 131926 0.7 0.690304
Target:  5'- gGGCUUCCUgcuguggGCCCUGCu-CACGGUGGAc -3'
miRNA:   3'- -UCGAAGGA-------CGGGGUGucGUGCUACUU- -5'
3768 3' -56.6 NC_001650.1 + 137839 0.7 0.681139
Target:  5'- cGGCgcaUCUggUGCCCCGCGGC-CGAUGc- -3'
miRNA:   3'- -UCGa--AGG--ACGGGGUGUCGuGCUACuu -5'
3768 3' -56.6 NC_001650.1 + 88625 0.7 0.660664
Target:  5'- gGGuCUacUCCUGCCCCGgCGGCgACGggGGAg -3'
miRNA:   3'- -UC-GA--AGGACGGGGU-GUCG-UGCuaCUU- -5'
3768 3' -56.6 NC_001650.1 + 26383 0.7 0.660664
Target:  5'- uGGCcaCCUGCCCCGuCAGUAUGcUGAc -3'
miRNA:   3'- -UCGaaGGACGGGGU-GUCGUGCuACUu -5'
3768 3' -56.6 NC_001650.1 + 158094 0.71 0.598945
Target:  5'- gAGCUgaaacaCCUGCCCCuGCAGCugGGgcUGGc -3'
miRNA:   3'- -UCGAa-----GGACGGGG-UGUCGugCU--ACUu -5'
3768 3' -56.6 NC_001650.1 + 136237 0.73 0.512354
Target:  5'- gGGCguagUCCUGCgCcaucuuggucaucagCCACAGCGCGAUGGc -3'
miRNA:   3'- -UCGa---AGGACG-G---------------GGUGUCGUGCUACUu -5'
3768 3' -56.6 NC_001650.1 + 133061 0.74 0.460658
Target:  5'- cGCcgCCUGCCCCGCGGgCACuAUGAc -3'
miRNA:   3'- uCGaaGGACGGGGUGUC-GUGcUACUu -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.