miRNA display CGI


Results 1 - 16 of 16 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
30916 3' -60.5 NC_006552.1 + 15747 0.66 0.516253
Target:  5'- aGCCGgcaUCCGGCgguggcgcgagcuugUCCAGUUCUuccuGCAa -3'
miRNA:   3'- gCGGCag-GGGCCGa--------------AGGUCAAGG----CGU- -5'
30916 3' -60.5 NC_006552.1 + 48241 0.66 0.495408
Target:  5'- -cCCG-CCCCGGUUcgCCGGgaCUGCAg -3'
miRNA:   3'- gcGGCaGGGGCCGAa-GGUCaaGGCGU- -5'
30916 3' -60.5 NC_006552.1 + 32973 0.66 0.495408
Target:  5'- gCGUCGgcgUCCUGGCUcCCAGcgUCCGgGa -3'
miRNA:   3'- -GCGGCa--GGGGCCGAaGGUCa-AGGCgU- -5'
30916 3' -60.5 NC_006552.1 + 13598 0.66 0.495408
Target:  5'- uGCgGUCCCCGuCUUCCuuGcgCUGCGc -3'
miRNA:   3'- gCGgCAGGGGCcGAAGGu-CaaGGCGU- -5'
30916 3' -60.5 NC_006552.1 + 3687 0.66 0.495408
Target:  5'- aGCCG-CCCCuGCUUC--GUUCCgGCAg -3'
miRNA:   3'- gCGGCaGGGGcCGAAGguCAAGG-CGU- -5'
30916 3' -60.5 NC_006552.1 + 56834 0.66 0.485616
Target:  5'- gGuuGUCCgCaGCUUCCAGggauUCgGCAg -3'
miRNA:   3'- gCggCAGGgGcCGAAGGUCa---AGgCGU- -5'
30916 3' -60.5 NC_006552.1 + 45787 0.66 0.475918
Target:  5'- aCGCCGUgUCCGGCUugUCCG--UCaGCAg -3'
miRNA:   3'- -GCGGCAgGGGCCGA--AGGUcaAGgCGU- -5'
30916 3' -60.5 NC_006552.1 + 32890 0.66 0.466316
Target:  5'- aCGCCGUCgCUCGccaucugcGCcaCCAGggCCGCAu -3'
miRNA:   3'- -GCGGCAG-GGGC--------CGaaGGUCaaGGCGU- -5'
30916 3' -60.5 NC_006552.1 + 22246 0.67 0.444624
Target:  5'- gGCCGUaucgaccaccagcaCCCUGGCgcggagCCGGUcgcucgCCGCAu -3'
miRNA:   3'- gCGGCA--------------GGGGCCGaa----GGUCAa-----GGCGU- -5'
30916 3' -60.5 NC_006552.1 + 62428 0.68 0.376388
Target:  5'- uCGUgGUCCCCgacgugcccgccGGCgUUCCGGcgCCGCu -3'
miRNA:   3'- -GCGgCAGGGG------------CCG-AAGGUCaaGGCGu -5'
30916 3' -60.5 NC_006552.1 + 40463 0.69 0.343837
Target:  5'- uCGCCauGUCCuuGGCguaCCAGUugccuUCCGUAc -3'
miRNA:   3'- -GCGG--CAGGggCCGaa-GGUCA-----AGGCGU- -5'
30916 3' -60.5 NC_006552.1 + 55927 0.69 0.34305
Target:  5'- uCGCCGgagaUCCCGGCggacaagcgcaccUUcaaCCAGUUCCGCc -3'
miRNA:   3'- -GCGGCa---GGGGCCG-------------AA---GGUCAAGGCGu -5'
30916 3' -60.5 NC_006552.1 + 7205 0.69 0.328339
Target:  5'- -cCCGUCCCCGGCgcgCAGcgagCCGCu -3'
miRNA:   3'- gcGGCAGGGGCCGaagGUCaa--GGCGu -5'
30916 3' -60.5 NC_006552.1 + 42034 0.7 0.271565
Target:  5'- uGCCGUCaCCUGGU-UCCAGgcuUCaCGCAa -3'
miRNA:   3'- gCGGCAG-GGGCCGaAGGUCa--AG-GCGU- -5'
30916 3' -60.5 NC_006552.1 + 22997 0.73 0.186682
Target:  5'- gGUCG-CCCCGGU-UCCcGUUCCGCGu -3'
miRNA:   3'- gCGGCaGGGGCCGaAGGuCAAGGCGU- -5'
30916 3' -60.5 NC_006552.1 + 64155 0.73 0.181011
Target:  5'- gCGCCG-CCCUGGCgcacgcgccgaCCAGUUCgGCAu -3'
miRNA:   3'- -GCGGCaGGGGCCGaa---------GGUCAAGgCGU- -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.