miRNA display CGI


Results 1 - 20 of 54 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
23904 3' -54.4 NC_005262.1 + 28814 0.66 0.839208
Target:  5'- cCCGc-GCAUCUcgaGCUCGCGUCGCg- -3'
miRNA:   3'- -GGCucUGUGGAag-UGAGCGUAGCGgc -5'
23904 3' -54.4 NC_005262.1 + 45551 0.66 0.839208
Target:  5'- uCCGGcGGCAaggaUUCGCUCGCGcUGCUGu -3'
miRNA:   3'- -GGCU-CUGUgg--AAGUGAGCGUaGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 11484 0.66 0.839208
Target:  5'- gCGAG-CACauggGC-CGCGUCGCCGa -3'
miRNA:   3'- gGCUCuGUGgaagUGaGCGUAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 33595 0.66 0.838343
Target:  5'- aUCGAGGcCACCgcagUCGCcccgacgUCGCAggaaaagcCGCCGg -3'
miRNA:   3'- -GGCUCU-GUGGa---AGUG-------AGCGUa-------GCGGC- -5'
23904 3' -54.4 NC_005262.1 + 7024 0.66 0.830462
Target:  5'- uUCGguGGACGucagguCCUUCGCgCGCAUCGCg- -3'
miRNA:   3'- -GGC--UCUGU------GGAAGUGaGCGUAGCGgc -5'
23904 3' -54.4 NC_005262.1 + 56791 0.66 0.830462
Target:  5'- aCCGaAGcCGCCgcgCugUUcgaaGCGUCGCCGu -3'
miRNA:   3'- -GGC-UCuGUGGaa-GugAG----CGUAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 14398 0.66 0.826013
Target:  5'- gCCGAacagaccaguugcGACGCCcgcggugaugaaCGCgCGCGUCGCCGa -3'
miRNA:   3'- -GGCU-------------CUGUGGaa----------GUGaGCGUAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 28843 0.66 0.821515
Target:  5'- gCCGAG-CGCCgcgUCgaACUUGC--CGCCGa -3'
miRNA:   3'- -GGCUCuGUGGa--AG--UGAGCGuaGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 58628 0.66 0.812375
Target:  5'- cCCGcGACGCCggccgUCACcgaUCaGCG-CGCCGa -3'
miRNA:   3'- -GGCuCUGUGGa----AGUG---AG-CGUaGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 30959 0.66 0.812375
Target:  5'- gCCGAa--ACCUugUCGC-CGaCGUCGCCGg -3'
miRNA:   3'- -GGCUcugUGGA--AGUGaGC-GUAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 34286 0.66 0.812375
Target:  5'- uUGAcGGCACCgacgCcCUCGCGgaUCGCCa -3'
miRNA:   3'- gGCU-CUGUGGaa--GuGAGCGU--AGCGGc -5'
23904 3' -54.4 NC_005262.1 + 17021 0.66 0.803052
Target:  5'- gCCGuuGAUACCg-----CGCGUCGCCGc -3'
miRNA:   3'- -GGCu-CUGUGGaagugaGCGUAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 33649 0.66 0.803052
Target:  5'- uCCGAGGCugaCgagcgCGcCUCGCugGUCGCCGc -3'
miRNA:   3'- -GGCUCUGug-Gaa---GU-GAGCG--UAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 58704 0.67 0.793557
Target:  5'- aCCGGGcgcGCACCgccgagcCGgUCGCAcgCGCCGc -3'
miRNA:   3'- -GGCUC---UGUGGaa-----GUgAGCGUa-GCGGC- -5'
23904 3' -54.4 NC_005262.1 + 41288 0.67 0.791637
Target:  5'- gCGGGACuGCCgcuucgcgaucCGCUCGCG-CGCCa -3'
miRNA:   3'- gGCUCUG-UGGaa---------GUGAGCGUaGCGGc -5'
23904 3' -54.4 NC_005262.1 + 27481 0.67 0.784871
Target:  5'- gCGAGcGCACCggccccccaccgaagUCGaccgaggugUUCGCGUCGCCGc -3'
miRNA:   3'- gGCUC-UGUGGa--------------AGU---------GAGCGUAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 4869 0.67 0.783898
Target:  5'- aCCGAGaagcgcGCGCCaUCGgUCGgGcCGCCGg -3'
miRNA:   3'- -GGCUC------UGUGGaAGUgAGCgUaGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 59623 0.67 0.780971
Target:  5'- gCGAGAagaACCUcgcgcgccagucucUC-CUCGCGcuggUCGCCGa -3'
miRNA:   3'- gGCUCUg--UGGA--------------AGuGAGCGU----AGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 22199 0.67 0.764135
Target:  5'- gCCGAGaACGCCgggcucgCGCUCgacaagcucacgGCcgCGCCGc -3'
miRNA:   3'- -GGCUC-UGUGGaa-----GUGAG------------CGuaGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 40898 0.67 0.764135
Target:  5'- aCGAGAaccgacCACCg-UACUCGCccUCGCCGu -3'
miRNA:   3'- gGCUCU------GUGGaaGUGAGCGu-AGCGGC- -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.