miRNA display CGI


Results 1 - 19 of 19 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
2956 3' -49.2 NC_001493.1 + 73213 0.66 0.996581
Target:  5'- cCGUGGccAGAuacuucaugGGAuGCGAGAaGGAGGUCGa -3'
miRNA:   3'- -GCACCa-UCU---------CCU-UGCUCU-CCUUUAGU- -5'
2956 3' -49.2 NC_001493.1 + 89871 0.67 0.995972
Target:  5'- aCGUGGUAucGGGACG-GAGGuu-UCc -3'
miRNA:   3'- -GCACCAUcuCCUUGCuCUCCuuuAGu -5'
2956 3' -49.2 NC_001493.1 + 2262 0.67 0.995277
Target:  5'- -cUGGc-GAGGGGCGGGAGGAu---- -3'
miRNA:   3'- gcACCauCUCCUUGCUCUCCUuuagu -5'
2956 3' -49.2 NC_001493.1 + 117816 0.67 0.995277
Target:  5'- -cUGGc-GAGGGGCGGGAGGAu---- -3'
miRNA:   3'- gcACCauCUCCUUGCUCUCCUuuagu -5'
2956 3' -49.2 NC_001493.1 + 9711 0.67 0.994488
Target:  5'- gCGUGGUAGGccGuGAGCccgGAGAGGAGGa-- -3'
miRNA:   3'- -GCACCAUCU--C-CUUG---CUCUCCUUUagu -5'
2956 3' -49.2 NC_001493.1 + 125730 0.68 0.991464
Target:  5'- aCG-GGgggAGAgGGAAUGGGGGGGAAUa- -3'
miRNA:   3'- -GCaCCa--UCU-CCUUGCUCUCCUUUAgu -5'
2956 3' -49.2 NC_001493.1 + 37523 0.68 0.990725
Target:  5'- -cUGGUAcuugcgcaugugcgcGGGGAugGAGGGGucGUCGa -3'
miRNA:   3'- gcACCAU---------------CUCCUugCUCUCCuuUAGU- -5'
2956 3' -49.2 NC_001493.1 + 125265 0.68 0.990206
Target:  5'- gCGUGGUAGGccGuGAGCccGAGAGGAGGa-- -3'
miRNA:   3'- -GCACCAUCU--C-CUUG--CUCUCCUUUagu -5'
2956 3' -49.2 NC_001493.1 + 51532 0.68 0.990206
Target:  5'- --aGGcgacgAGGGGGaccuggaccgccACGGGAGGggGUCAa -3'
miRNA:   3'- gcaCCa----UCUCCU------------UGCUCUCCuuUAGU- -5'
2956 3' -49.2 NC_001493.1 + 36154 0.69 0.976915
Target:  5'- cCG-GGUGGAGGGggcuccuguggaGCGAGGGGu--UCGg -3'
miRNA:   3'- -GCaCCAUCUCCU------------UGCUCUCCuuuAGU- -5'
2956 3' -49.2 NC_001493.1 + 91677 0.69 0.976915
Target:  5'- --aGGUGGAGGAACcgguGGAGGAAc--- -3'
miRNA:   3'- gcaCCAUCUCCUUGc---UCUCCUUuagu -5'
2956 3' -49.2 NC_001493.1 + 71239 0.7 0.968306
Target:  5'- --aGGgauGGGGGugGAGGGGAAAUa- -3'
miRNA:   3'- gcaCCau-CUCCUugCUCUCCUUUAgu -5'
2956 3' -49.2 NC_001493.1 + 32395 0.7 0.962881
Target:  5'- gGUGGacaagaaucgcgcacUGGAGGAaacacucgguacGCGAGAcgcGGAGAUCAg -3'
miRNA:   3'- gCACC---------------AUCUCCU------------UGCUCU---CCUUUAGU- -5'
2956 3' -49.2 NC_001493.1 + 94649 0.7 0.96143
Target:  5'- -----cGGGGGAcACGAGGGGAGGUCGu -3'
miRNA:   3'- gcaccaUCUCCU-UGCUCUCCUUUAGU- -5'
2956 3' -49.2 NC_001493.1 + 10219 0.71 0.949284
Target:  5'- uGUGGaAGAGGGA-GGGAGGGAGa-- -3'
miRNA:   3'- gCACCaUCUCCUUgCUCUCCUUUagu -5'
2956 3' -49.2 NC_001493.1 + 129379 0.71 0.949284
Target:  5'- uGUGGUccAGGGGggUGAauGAGcGggGUCGu -3'
miRNA:   3'- gCACCA--UCUCCuuGCU--CUC-CuuUAGU- -5'
2956 3' -49.2 NC_001493.1 + 125773 0.71 0.949284
Target:  5'- uGUGGaAGAGGGA-GGGAGGGAGa-- -3'
miRNA:   3'- gCACCaUCUCCUUgCUCUCCUUUagu -5'
2956 3' -49.2 NC_001493.1 + 13825 0.71 0.949284
Target:  5'- uGUGGUccAGGGGggUGAauGAGcGggGUCGu -3'
miRNA:   3'- gCACCA--UCUCCuuGCU--CUC-CuuUAGU- -5'
2956 3' -49.2 NC_001493.1 + 80053 1.09 0.011366
Target:  5'- uCGUGGUAGAGGAACGAGAGGAAAUCAu -3'
miRNA:   3'- -GCACCAUCUCCUUGCUCUCCUUUAGU- -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.