miRNA display CGI


Results 1 - 20 of 39 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
24060 5' -65.1 NC_005262.1 + 70 0.66 0.305007
Target:  5'- cCGC--GGCUCGCGaagaagucGGCCgCGCCGCa -3'
miRNA:   3'- -GCGuuCCGAGCGUcc------CCGG-GCGGCGc -5'
24060 5' -65.1 NC_005262.1 + 1261 0.66 0.298031
Target:  5'- uCGCAcuGGGCUuccgCGCAGGauggcaaGCCCG-CGCGg -3'
miRNA:   3'- -GCGU--UCCGA----GCGUCCc------CGGGCgGCGC- -5'
24060 5' -65.1 NC_005262.1 + 4330 0.66 0.271364
Target:  5'- gGCGAGcCUCGCGGGccguccaucGGCC-GUCGCGa -3'
miRNA:   3'- gCGUUCcGAGCGUCC---------CCGGgCGGCGC- -5'
24060 5' -65.1 NC_005262.1 + 4406 0.71 0.12734
Target:  5'- cCGCGAGGCUCGCcguagucgacgaugAGGGGCgCGUgauugagGCGg -3'
miRNA:   3'- -GCGUUCCGAGCG--------------UCCCCGgGCGg------CGC- -5'
24060 5' -65.1 NC_005262.1 + 5543 0.69 0.179002
Target:  5'- gGCGAGGUUCGCcGcGaGGUCaUGCCGCGc -3'
miRNA:   3'- gCGUUCCGAGCGuC-C-CCGG-GCGGCGC- -5'
24060 5' -65.1 NC_005262.1 + 11519 0.67 0.235007
Target:  5'- gGCGcGGCgugucgCGCAccuucGGcGGCCCGgCGCGg -3'
miRNA:   3'- gCGUuCCGa-----GCGU-----CC-CCGGGCgGCGC- -5'
24060 5' -65.1 NC_005262.1 + 12748 0.69 0.18356
Target:  5'- gCGCAGGGUUCGCc---GCgCGCCGCGc -3'
miRNA:   3'- -GCGUUCCGAGCGucccCGgGCGGCGC- -5'
24060 5' -65.1 NC_005262.1 + 13449 0.7 0.165926
Target:  5'- cCGCGugaAGGgUCGCaAGGGcgcgaaGCCCGCgCGCGu -3'
miRNA:   3'- -GCGU---UCCgAGCG-UCCC------CGGGCG-GCGC- -5'
24060 5' -65.1 NC_005262.1 + 15047 0.66 0.271364
Target:  5'- --gGGGGUUCGCcgucuuuuccgaAGGGGUUCGCgGCGu -3'
miRNA:   3'- gcgUUCCGAGCG------------UCCCCGGGCGgCGC- -5'
24060 5' -65.1 NC_005262.1 + 17096 0.68 0.229361
Target:  5'- aCGCGgcGGGC-CGCgAGGaGGUCCaCCGCGc -3'
miRNA:   3'- -GCGU--UCCGaGCG-UCC-CCGGGcGGCGC- -5'
24060 5' -65.1 NC_005262.1 + 17189 0.67 0.258766
Target:  5'- gCGCGGuGGaccucCUCGC---GGCCCGCCGCGu -3'
miRNA:   3'- -GCGUU-CC-----GAGCGuccCCGGGCGGCGC- -5'
24060 5' -65.1 NC_005262.1 + 17203 0.67 0.250836
Target:  5'- aGCAAGGC-CGUuaucaccgaggaaaAGcGGCUCGUCGCGa -3'
miRNA:   3'- gCGUUCCGaGCG--------------UCcCCGGGCGGCGC- -5'
24060 5' -65.1 NC_005262.1 + 22206 0.68 0.218949
Target:  5'- aCGCcGGGCUCGCGcucgacaagcucacGGCCgCGCCGCc -3'
miRNA:   3'- -GCGuUCCGAGCGUcc------------CCGG-GCGGCGc -5'
24060 5' -65.1 NC_005262.1 + 22363 0.66 0.271364
Target:  5'- cCGCGuGGUgCGgAGGGuGUCCGgCGCGg -3'
miRNA:   3'- -GCGUuCCGaGCgUCCC-CGGGCgGCGC- -5'
24060 5' -65.1 NC_005262.1 + 24873 0.68 0.202326
Target:  5'- uCGCGaugucgaAGuGCUCGCcc-GGCUCGCCGCGg -3'
miRNA:   3'- -GCGU-------UC-CGAGCGuccCCGGGCGGCGC- -5'
24060 5' -65.1 NC_005262.1 + 24926 0.71 0.135163
Target:  5'- gCGCAGGGUgaUCgGCAcGGcGCCgGCCGCGa -3'
miRNA:   3'- -GCGUUCCG--AG-CGUcCC-CGGgCGGCGC- -5'
24060 5' -65.1 NC_005262.1 + 25732 0.68 0.213107
Target:  5'- gGcCGAGGCgaucgCGCAGGccGGCaaGCCGCu -3'
miRNA:   3'- gC-GUUCCGa----GCGUCC--CCGggCGGCGc -5'
24060 5' -65.1 NC_005262.1 + 31724 0.68 0.207913
Target:  5'- aCGC-GGGCaUCGCcguAGGucGGCuuGCCGCGc -3'
miRNA:   3'- -GCGuUCCG-AGCG---UCC--CCGggCGGCGC- -5'
24060 5' -65.1 NC_005262.1 + 34998 0.67 0.24077
Target:  5'- aGCcGGGCa-GCAGcgcGGGCCCGuCCGUa -3'
miRNA:   3'- gCGuUCCGagCGUC---CCCGGGC-GGCGc -5'
24060 5' -65.1 NC_005262.1 + 35344 0.66 0.284451
Target:  5'- uCGUGccGUUCGCcgGGGGcGCCCaGCCGCu -3'
miRNA:   3'- -GCGUucCGAGCG--UCCC-CGGG-CGGCGc -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.