miRNA display CGI


Results 1 - 20 of 36 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
11948 3' -52.7 NC_003278.1 + 3115 1.11 0.00093
Target:  5'- uCGUCGACGAACUGGCACAUCAGCAGGu -3'
miRNA:   3'- -GCAGCUGCUUGACCGUGUAGUCGUCC- -5'
11948 3' -52.7 NC_003278.1 + 8052 0.66 0.777277
Target:  5'- -cUCGGCGccuGGCUGGCcaccgGCAcgaAGCAGGa -3'
miRNA:   3'- gcAGCUGC---UUGACCG-----UGUag-UCGUCC- -5'
11948 3' -52.7 NC_003278.1 + 34316 0.66 0.775189
Target:  5'- cCGaUCGACGAggaagguccagcuACUGGCcccggcgcugcgcGCAcugcagCAGCAGGc -3'
miRNA:   3'- -GC-AGCUGCU-------------UGACCG-------------UGUa-----GUCGUCC- -5'
11948 3' -52.7 NC_003278.1 + 33159 0.66 0.763591
Target:  5'- -cUCGACGGccugagcgacagcgACUGGCGCGagcggaUCGGCAa- -3'
miRNA:   3'- gcAGCUGCU--------------UGACCGUGU------AGUCGUcc -5'
11948 3' -52.7 NC_003278.1 + 13417 0.66 0.723379
Target:  5'- gCGUCGACGccugGGCAUggaaguguccgaAUCGGCGGu -3'
miRNA:   3'- -GCAGCUGCuugaCCGUG------------UAGUCGUCc -5'
11948 3' -52.7 NC_003278.1 + 1604 0.67 0.70104
Target:  5'- gGcCGGCGAGCUGGU-CGUC-GCGGc -3'
miRNA:   3'- gCaGCUGCUUGACCGuGUAGuCGUCc -5'
11948 3' -52.7 NC_003278.1 + 22649 0.67 0.689755
Target:  5'- cCGUCGACGAAaccGaGCACAgCGGCGcgccGGa -3'
miRNA:   3'- -GCAGCUGCUUga-C-CGUGUaGUCGU----CC- -5'
11948 3' -52.7 NC_003278.1 + 15448 0.68 0.621208
Target:  5'- uGUCGcAgGGACUGGC-CA-CGGCAGu -3'
miRNA:   3'- gCAGC-UgCUUGACCGuGUaGUCGUCc -5'
11948 3' -52.7 NC_003278.1 + 13137 0.68 0.609753
Target:  5'- gCGUCGGCGAugcCUcGGC-CGUCAGCc-- -3'
miRNA:   3'- -GCAGCUGCUu--GA-CCGuGUAGUCGucc -5'
11948 3' -52.7 NC_003278.1 + 6098 0.69 0.552997
Target:  5'- uGUCGcucuACUGGCAgAUCGGCGGu -3'
miRNA:   3'- gCAGCugcuUGACCGUgUAGUCGUCc -5'
11948 3' -52.7 NC_003278.1 + 14352 0.71 0.476574
Target:  5'- gGUCGcCGAGCUGGUACugccgauggccAUCGGUGGa -3'
miRNA:   3'- gCAGCuGCUUGACCGUG-----------UAGUCGUCc -5'
11948 3' -52.7 NC_003278.1 + 28127 0.71 0.476574
Target:  5'- aGUgCGGCGAcacCUGGCACAUCA--AGGa -3'
miRNA:   3'- gCA-GCUGCUu--GACCGUGUAGUcgUCC- -5'
11948 3' -52.7 NC_003278.1 + 5406 0.74 0.293248
Target:  5'- gCGUCGACGAGCUgcagGGCgagaagaucgGCAUCGGCGu- -3'
miRNA:   3'- -GCAGCUGCUUGA----CCG----------UGUAGUCGUcc -5'
11948 3' -52.7 NC_003278.1 + 19002 0.68 0.621208
Target:  5'- uCGgUGAUGGucgGCUGGCugAUgcgCGGCAGGa -3'
miRNA:   3'- -GCaGCUGCU---UGACCGugUA---GUCGUCC- -5'
11948 3' -52.7 NC_003278.1 + 9630 0.68 0.644136
Target:  5'- gGUCGGCcuGGGcCUGGCGC-UC-GCGGGa -3'
miRNA:   3'- gCAGCUG--CUU-GACCGUGuAGuCGUCC- -5'
11948 3' -52.7 NC_003278.1 + 2309 0.68 0.644136
Target:  5'- uGUCuaugGAgGGGCUGGCcaaGUCGGUGGGg -3'
miRNA:   3'- gCAG----CUgCUUGACCGug-UAGUCGUCC- -5'
11948 3' -52.7 NC_003278.1 + 30389 0.68 0.655588
Target:  5'- gCGUUGACGGcgucCUGGCGCuccagggccaucGUCAuCAGGg -3'
miRNA:   3'- -GCAGCUGCUu---GACCGUG------------UAGUcGUCC- -5'
11948 3' -52.7 NC_003278.1 + 30334 0.67 0.712252
Target:  5'- ---aGGCGAGCUGGUGCucggaCAGCGGc -3'
miRNA:   3'- gcagCUGCUUGACCGUGua---GUCGUCc -5'
11948 3' -52.7 NC_003278.1 + 18961 0.67 0.712252
Target:  5'- gGUCGcggccacauCGAACUGcaGCAgGUCgAGCAGGu -3'
miRNA:   3'- gCAGCu--------GCUUGAC--CGUgUAG-UCGUCC- -5'
11948 3' -52.7 NC_003278.1 + 22073 0.81 0.103757
Target:  5'- --cCGACGAACUGGCGCGcCGGCuGGg -3'
miRNA:   3'- gcaGCUGCUUGACCGUGUaGUCGuCC- -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.