miRNA display CGI


Results 1 - 20 of 38 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
18765 3' -64.2 NC_004683.1 + 28544 0.66 0.320974
Target:  5'- --aGUCGGCCguugCGCCGgGGCAauccccCUCCc -3'
miRNA:   3'- aggCAGCCGGa---GCGGC-CCGUc-----GAGGu -5'
18765 3' -64.2 NC_004683.1 + 12870 0.66 0.320974
Target:  5'- aUCCGccagCGGCgUauccCGCCGGGUAGCcguagCCc -3'
miRNA:   3'- -AGGCa---GCCGgA----GCGGCCCGUCGa----GGu -5'
18765 3' -64.2 NC_004683.1 + 25874 0.66 0.313629
Target:  5'- gCUG-CGGCUcggcgucgaguUCGCCGGGCAGaCgcuggCCGc -3'
miRNA:   3'- aGGCaGCCGG-----------AGCGGCCCGUC-Ga----GGU- -5'
18765 3' -64.2 NC_004683.1 + 4449 0.66 0.313629
Target:  5'- gUCGUCGcuggcGUCUCGCUGcGCGGCUUCGu -3'
miRNA:   3'- aGGCAGC-----CGGAGCGGCcCGUCGAGGU- -5'
18765 3' -64.2 NC_004683.1 + 52217 0.66 0.313629
Target:  5'- gCCGUCGucggucggguccGCCUCggcgacccggGCCGGcGCGGCaCCAa -3'
miRNA:   3'- aGGCAGC------------CGGAG----------CGGCC-CGUCGaGGU- -5'
18765 3' -64.2 NC_004683.1 + 31893 0.66 0.313629
Target:  5'- aUCGUCGGCuCggGCCGGuGCAGC-Ca- -3'
miRNA:   3'- aGGCAGCCG-GagCGGCC-CGUCGaGgu -5'
18765 3' -64.2 NC_004683.1 + 8368 0.66 0.31145
Target:  5'- gCCGucuccugacggugaUCGGCCcCGCgCGGGCcGCgaUCCAg -3'
miRNA:   3'- aGGC--------------AGCCGGaGCG-GCCCGuCG--AGGU- -5'
18765 3' -64.2 NC_004683.1 + 29496 0.66 0.299322
Target:  5'- aCCGUCGGaCCUCaccaagggGCCGGGaacgugGGuUUCCAa -3'
miRNA:   3'- aGGCAGCC-GGAG--------CGGCCCg-----UC-GAGGU- -5'
18765 3' -64.2 NC_004683.1 + 46675 0.66 0.299322
Target:  5'- gCCGUcgCGGcCCUCGaCCGGcaccaGCAGCggcagCCAg -3'
miRNA:   3'- aGGCA--GCC-GGAGC-GGCC-----CGUCGa----GGU- -5'
18765 3' -64.2 NC_004683.1 + 22025 0.66 0.299322
Target:  5'- cUCGgCGGCCgcaccgccacCGCCGGGCGGauugCCGg -3'
miRNA:   3'- aGGCaGCCGGa---------GCGGCCCGUCga--GGU- -5'
18765 3' -64.2 NC_004683.1 + 11787 0.66 0.299322
Target:  5'- aCCGUCGGCg-UGCCGcuGCAgcGCUCCc -3'
miRNA:   3'- aGGCAGCCGgaGCGGCc-CGU--CGAGGu -5'
18765 3' -64.2 NC_004683.1 + 21938 0.66 0.299322
Target:  5'- aUCCGccCGGCggUGgCGGGCGGCcgCCGa -3'
miRNA:   3'- -AGGCa-GCCGgaGCgGCCCGUCGa-GGU- -5'
18765 3' -64.2 NC_004683.1 + 340 0.66 0.278818
Target:  5'- aCCGUCGcgaccaGCCcCGCCgcGGGCAGCagCGg -3'
miRNA:   3'- aGGCAGC------CGGaGCGG--CCCGUCGagGU- -5'
18765 3' -64.2 NC_004683.1 + 41394 0.66 0.278818
Target:  5'- gCCGUCaGCCUgGgCGGGUGGCgcggugaggCCGg -3'
miRNA:   3'- aGGCAGcCGGAgCgGCCCGUCGa--------GGU- -5'
18765 3' -64.2 NC_004683.1 + 40883 0.66 0.278818
Target:  5'- cUCGcacUCGGCCUCGCCGucGGCgAGCgcgUCGg -3'
miRNA:   3'- aGGC---AGCCGGAGCGGC--CCG-UCGa--GGU- -5'
18765 3' -64.2 NC_004683.1 + 13661 0.67 0.26578
Target:  5'- gCCGUCGGgCUCGCCacuGGGCAacaUCg- -3'
miRNA:   3'- aGGCAGCCgGAGCGG---CCCGUcg-AGgu -5'
18765 3' -64.2 NC_004683.1 + 28781 0.67 0.263867
Target:  5'- cUCGUCGacacgggaucugaaGCCggCGCUGGGCAGgcCUCCGc -3'
miRNA:   3'- aGGCAGC--------------CGGa-GCGGCCCGUC--GAGGU- -5'
18765 3' -64.2 NC_004683.1 + 8976 0.67 0.259448
Target:  5'- gUUGUUGGCCagccgcugaaUCGCCGGGUacaGGUUCUg -3'
miRNA:   3'- aGGCAGCCGG----------AGCGGCCCG---UCGAGGu -5'
18765 3' -64.2 NC_004683.1 + 40959 0.67 0.25324
Target:  5'- cCCGUCGGCCaCGCCGaccuGGCcGCgcgcaucgCCGc -3'
miRNA:   3'- aGGCAGCCGGaGCGGC----CCGuCGa-------GGU- -5'
18765 3' -64.2 NC_004683.1 + 2503 0.67 0.25324
Target:  5'- --aGUUGGUguuCUCGUCGGuGCGGUUCCGg -3'
miRNA:   3'- aggCAGCCG---GAGCGGCC-CGUCGAGGU- -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.