miRNA display CGI


Results 1 - 20 of 37 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
14182 5' -58.4 NC_003521.1 + 17146 0.66 0.901247
Target:  5'- gCGCG-CUUCGcCCGACCCuCCCuGg-- -3'
miRNA:   3'- -GCGCuGAGGCaGGUUGGG-GGGuCauu -5'
14182 5' -58.4 NC_003521.1 + 59049 0.66 0.901247
Target:  5'- uCGCGACUaCCGggcgcugugggCCuuCUCCCUGGUGAu -3'
miRNA:   3'- -GCGCUGA-GGCa----------GGuuGGGGGGUCAUU- -5'
14182 5' -58.4 NC_003521.1 + 29552 0.66 0.888638
Target:  5'- gCGCGACccaCCcaCCGACacaCCCCGGUGGa -3'
miRNA:   3'- -GCGCUGa--GGcaGGUUGg--GGGGUCAUU- -5'
14182 5' -58.4 NC_003521.1 + 180122 0.66 0.888638
Target:  5'- uGCGAC-CCGcgCC-GCCCCCgGGUc- -3'
miRNA:   3'- gCGCUGaGGCa-GGuUGGGGGgUCAuu -5'
14182 5' -58.4 NC_003521.1 + 230609 0.66 0.882021
Target:  5'- -uCGugUCUGUCCuuCCCCCCuccccGUGu -3'
miRNA:   3'- gcGCugAGGCAGGuuGGGGGGu----CAUu -5'
14182 5' -58.4 NC_003521.1 + 95744 0.66 0.874507
Target:  5'- gGCGGCUgagccacagguagUCGUCCGAgCCgCCCAGa-- -3'
miRNA:   3'- gCGCUGA-------------GGCAGGUUgGG-GGGUCauu -5'
14182 5' -58.4 NC_003521.1 + 129861 0.66 0.873115
Target:  5'- gGCGAC-CCGUCCGcuuCCUccgcgagaacaacaCCCAGUGc -3'
miRNA:   3'- gCGCUGaGGCAGGUu--GGG--------------GGGUCAUu -5'
14182 5' -58.4 NC_003521.1 + 68427 0.67 0.860965
Target:  5'- gCGaCGGCUCCG-CCGgcGCCCCUCAa--- -3'
miRNA:   3'- -GC-GCUGAGGCaGGU--UGGGGGGUcauu -5'
14182 5' -58.4 NC_003521.1 + 162323 0.67 0.860965
Target:  5'- uCGCGugUCCGgUCGGCCCgUCCgaGGUAAg -3'
miRNA:   3'- -GCGCugAGGCaGGUUGGG-GGG--UCAUU- -5'
14182 5' -58.4 NC_003521.1 + 157071 0.67 0.845973
Target:  5'- cCGCcACcCUGUCCcaGGCCCCCCgcGGUGAg -3'
miRNA:   3'- -GCGcUGaGGCAGG--UUGGGGGG--UCAUU- -5'
14182 5' -58.4 NC_003521.1 + 221847 0.67 0.841334
Target:  5'- gCGCGGCg-CGUCCucGACCCCCUccucguugucgcuggGGUAGg -3'
miRNA:   3'- -GCGCUGagGCAGG--UUGGGGGG---------------UCAUU- -5'
14182 5' -58.4 NC_003521.1 + 117392 0.67 0.838207
Target:  5'- gGCGcCUCCGUCCuAUCCCgCCgucGGUGc -3'
miRNA:   3'- gCGCuGAGGCAGGuUGGGG-GG---UCAUu -5'
14182 5' -58.4 NC_003521.1 + 151075 0.67 0.838207
Target:  5'- gCGCGGguUUCUGgaccgCCGACCCCUCGGg-- -3'
miRNA:   3'- -GCGCU--GAGGCa----GGUUGGGGGGUCauu -5'
14182 5' -58.4 NC_003521.1 + 206607 0.67 0.838207
Target:  5'- gGCGACacgggcgCCGUCUAcGCCgCCCUGGUGGg -3'
miRNA:   3'- gCGCUGa------GGCAGGU-UGG-GGGGUCAUU- -5'
14182 5' -58.4 NC_003521.1 + 127478 0.67 0.83742
Target:  5'- -cCGGC-CCGUCCcccuggaAGCCCCCCGGc-- -3'
miRNA:   3'- gcGCUGaGGCAGG-------UUGGGGGGUCauu -5'
14182 5' -58.4 NC_003521.1 + 85415 0.67 0.830269
Target:  5'- aGCaGGcCUCCGgugcCCAGCCCCCCGc--- -3'
miRNA:   3'- gCG-CU-GAGGCa---GGUUGGGGGGUcauu -5'
14182 5' -58.4 NC_003521.1 + 208105 0.67 0.830269
Target:  5'- gGUGGCgUCG-CCAACCCCCCAc--- -3'
miRNA:   3'- gCGCUGaGGCaGGUUGGGGGGUcauu -5'
14182 5' -58.4 NC_003521.1 + 187064 0.68 0.822165
Target:  5'- aCGCGACUCCGUCagcuuCUCCUCGa--- -3'
miRNA:   3'- -GCGCUGAGGCAGguu--GGGGGGUcauu -5'
14182 5' -58.4 NC_003521.1 + 148593 0.68 0.813903
Target:  5'- gCGCGGCgcCCGUCgGGCCCUCaCAGc-- -3'
miRNA:   3'- -GCGCUGa-GGCAGgUUGGGGG-GUCauu -5'
14182 5' -58.4 NC_003521.1 + 112806 0.69 0.761412
Target:  5'- aCGCG-CUCUGggacggCCGcgACCCCCCGGa-- -3'
miRNA:   3'- -GCGCuGAGGCa-----GGU--UGGGGGGUCauu -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.