miRNA display CGI


Results 1 - 20 of 34 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
27063 3' -62.4 NC_005832.1 + 50786 0.8 0.077243
Target:  5'- gGgUCCCACGcGCCUGACUGGACCGGc -3'
miRNA:   3'- gCgAGGGUGCcUGGGCUGGCCUGGCU- -5'
27063 3' -62.4 NC_005832.1 + 67338 0.66 0.593543
Target:  5'- cCGCUCCCccCaGACCCGccACCGccGCCGGa -3'
miRNA:   3'- -GCGAGGGu-GcCUGGGC--UGGCc-UGGCU- -5'
27063 3' -62.4 NC_005832.1 + 20002 0.66 0.583735
Target:  5'- uCGCUCCCACcagGGAcaacaCCCaGGCggCGGACgCGAu -3'
miRNA:   3'- -GCGAGGGUG---CCU-----GGG-CUG--GCCUG-GCU- -5'
27063 3' -62.4 NC_005832.1 + 95372 0.67 0.525768
Target:  5'- gGUgUCCCGgGGACCCuGGCCGcuCCGGa -3'
miRNA:   3'- gCG-AGGGUgCCUGGG-CUGGCcuGGCU- -5'
27063 3' -62.4 NC_005832.1 + 36073 0.67 0.525768
Target:  5'- aCGCUCCUggGCuGGACCaCGACCGccCUGGc -3'
miRNA:   3'- -GCGAGGG--UG-CCUGG-GCUGGCcuGGCU- -5'
27063 3' -62.4 NC_005832.1 + 40897 0.67 0.524819
Target:  5'- gGC-CCUGCcaaaggaggGGACCCGACCGGguaagcgGCCGc -3'
miRNA:   3'- gCGaGGGUG---------CCUGGGCUGGCC-------UGGCu -5'
27063 3' -62.4 NC_005832.1 + 90305 0.67 0.52387
Target:  5'- aCGCUCUCGCcuggcauccucuuGGGCCUcauGACCGGAgaguuguCCGGg -3'
miRNA:   3'- -GCGAGGGUG-------------CCUGGG---CUGGCCU-------GGCU- -5'
27063 3' -62.4 NC_005832.1 + 80894 0.67 0.516304
Target:  5'- gGC-CCCG-GGACCCuuugccgaagcaGACUGGGCCGu -3'
miRNA:   3'- gCGaGGGUgCCUGGG------------CUGGCCUGGCu -5'
27063 3' -62.4 NC_005832.1 + 67642 0.67 0.497589
Target:  5'- aGCUCCCuuGGACCUugaGAauGGACCc- -3'
miRNA:   3'- gCGAGGGugCCUGGG---CUggCCUGGcu -5'
27063 3' -62.4 NC_005832.1 + 72641 0.68 0.479183
Target:  5'- gGgUCCCgAUGGGCCCG-CgGGGcCCGAc -3'
miRNA:   3'- gCgAGGG-UGCCUGGGCuGgCCU-GGCU- -5'
27063 3' -62.4 NC_005832.1 + 84553 0.71 0.309448
Target:  5'- cCGCUgCCAUGGccucgucccuaGCCCugguccaacauuuGGCCGGGCCGGg -3'
miRNA:   3'- -GCGAgGGUGCC-----------UGGG-------------CUGGCCUGGCU- -5'
27063 3' -62.4 NC_005832.1 + 65935 0.7 0.341507
Target:  5'- aCGCUCCCGCcuuuaggcuggcuagGGACCUGuCCcugGGAUCGGu -3'
miRNA:   3'- -GCGAGGGUG---------------CCUGGGCuGG---CCUGGCU- -5'
27063 3' -62.4 NC_005832.1 + 89252 0.7 0.345959
Target:  5'- gGCUCCCACGGcguACCCuGGCCaG-CCGu -3'
miRNA:   3'- gCGAGGGUGCC---UGGG-CUGGcCuGGCu -5'
27063 3' -62.4 NC_005832.1 + 87435 0.7 0.353471
Target:  5'- uGCUggCCAUGGACCCGGCgGcaaaGGCCGAc -3'
miRNA:   3'- gCGAg-GGUGCCUGGGCUGgC----CUGGCU- -5'
27063 3' -62.4 NC_005832.1 + 97367 0.7 0.368836
Target:  5'- aGCUCCUcaACGucaaGCCCGACCGucucaagagccuGACCGAg -3'
miRNA:   3'- gCGAGGG--UGCc---UGGGCUGGC------------CUGGCU- -5'
27063 3' -62.4 NC_005832.1 + 98552 0.69 0.383853
Target:  5'- aGCUCCCGCGGcGCUCaugaGACaagaguaCGGGCCGGc -3'
miRNA:   3'- gCGAGGGUGCC-UGGG----CUG-------GCCUGGCU- -5'
27063 3' -62.4 NC_005832.1 + 72867 0.66 0.593543
Target:  5'- gGC-CCCugGGACCCGucuugcccaaCGGcCCGu -3'
miRNA:   3'- gCGaGGGugCCUGGGCug--------GCCuGGCu -5'
27063 3' -62.4 NC_005832.1 + 72411 0.74 0.199357
Target:  5'- uCGC-CCCugGgccccuaGugCCGACCGGACCGu -3'
miRNA:   3'- -GCGaGGGugC-------CugGGCUGGCCUGGCu -5'
27063 3' -62.4 NC_005832.1 + 39872 0.73 0.240883
Target:  5'- gGCUaaaccgucuggacCCCugGGACCUG-CCGGACCu- -3'
miRNA:   3'- gCGA-------------GGGugCCUGGGCuGGCCUGGcu -5'
27063 3' -62.4 NC_005832.1 + 29395 0.72 0.28292
Target:  5'- aCGCUCCCAagaGGuuguuugACCCcaGGCCGGgcGCCGAa -3'
miRNA:   3'- -GCGAGGGUg--CC-------UGGG--CUGGCC--UGGCU- -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.