miRNA display CGI


Results 1 - 20 of 25 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
18363 5' -55.5 NC_004681.1 + 286 0.66 0.800388
Target:  5'- gCAcGUGGCgcaaAGGGCUCUACCGUgUCGUg -3'
miRNA:   3'- gGU-CACCG----UCUUGAGGUGGUA-GGCGa -5'
18363 5' -55.5 NC_004681.1 + 72772 0.66 0.800388
Target:  5'- cCCAucuUGcGCAGGACUgCCACCAggcccuuggcgCCGCg -3'
miRNA:   3'- -GGUc--AC-CGUCUUGA-GGUGGUa----------GGCGa -5'
18363 5' -55.5 NC_004681.1 + 10918 0.66 0.800388
Target:  5'- -gGGUGGaguacuGGAACUCCAuuccCCAcCCGCa -3'
miRNA:   3'- ggUCACCg-----UCUUGAGGU----GGUaGGCGa -5'
18363 5' -55.5 NC_004681.1 + 57864 0.66 0.790892
Target:  5'- -gAGUGGCcgcaugggcugcGGGGC-CCACCGgagCCGCc -3'
miRNA:   3'- ggUCACCG------------UCUUGaGGUGGUa--GGCGa -5'
18363 5' -55.5 NC_004681.1 + 72158 0.66 0.781238
Target:  5'- aCAGgaucGGCgAGAACUUgACCAUCUGg- -3'
miRNA:   3'- gGUCa---CCG-UCUUGAGgUGGUAGGCga -5'
18363 5' -55.5 NC_004681.1 + 11696 0.66 0.781238
Target:  5'- aCCAGccUGGCGG-ACUUCACC--CCGUUc -3'
miRNA:   3'- -GGUC--ACCGUCuUGAGGUGGuaGGCGA- -5'
18363 5' -55.5 NC_004681.1 + 12950 0.66 0.781238
Target:  5'- -uGGU-GCGGAGCUCUuCCAggCCGCUu -3'
miRNA:   3'- ggUCAcCGUCUUGAGGuGGUa-GGCGA- -5'
18363 5' -55.5 NC_004681.1 + 30899 0.66 0.771437
Target:  5'- gCGGUGGCG--GCUCCACCG--CGUg -3'
miRNA:   3'- gGUCACCGUcuUGAGGUGGUagGCGa -5'
18363 5' -55.5 NC_004681.1 + 26486 0.66 0.771437
Target:  5'- cCCAGUGGuCAGcGC-CCGCgGcgCCGCc -3'
miRNA:   3'- -GGUCACC-GUCuUGaGGUGgUa-GGCGa -5'
18363 5' -55.5 NC_004681.1 + 57489 0.66 0.761497
Target:  5'- aCCGG-GGguGAACccgagcCCGCCA-CCGCc -3'
miRNA:   3'- -GGUCaCCguCUUGa-----GGUGGUaGGCGa -5'
18363 5' -55.5 NC_004681.1 + 71700 0.67 0.741248
Target:  5'- aCCA-UGGCAuuGAugUCCGC--UCCGCUg -3'
miRNA:   3'- -GGUcACCGU--CUugAGGUGguAGGCGA- -5'
18363 5' -55.5 NC_004681.1 + 70756 0.67 0.730961
Target:  5'- gCCAGcUGGCuuGAguuugauagcGCUCCGCCucagcUCCGUUg -3'
miRNA:   3'- -GGUC-ACCGu-CU----------UGAGGUGGu----AGGCGA- -5'
18363 5' -55.5 NC_004681.1 + 36804 0.67 0.720578
Target:  5'- uCCAGcuUGGguGGGCgcaCCACCAgcaggCCGUc -3'
miRNA:   3'- -GGUC--ACCguCUUGa--GGUGGUa----GGCGa -5'
18363 5' -55.5 NC_004681.1 + 65934 0.67 0.720578
Target:  5'- aCGGUGGCAcuGAcCUCUggcaugaCAUCCGCUa -3'
miRNA:   3'- gGUCACCGU--CUuGAGGug-----GUAGGCGA- -5'
18363 5' -55.5 NC_004681.1 + 16722 0.67 0.720578
Target:  5'- gCGGUGGCAGcGAUggCACCGUCaaGCUg -3'
miRNA:   3'- gGUCACCGUC-UUGagGUGGUAGg-CGA- -5'
18363 5' -55.5 NC_004681.1 + 27800 0.68 0.68897
Target:  5'- uCCAGagcccccaGGCGGGggGCUCaACCAUCUGCa -3'
miRNA:   3'- -GGUCa-------CCGUCU--UGAGgUGGUAGGCGa -5'
18363 5' -55.5 NC_004681.1 + 1822 0.68 0.678316
Target:  5'- cCCAucgacGUGGUcaAACUCCACCAcgCCGUUc -3'
miRNA:   3'- -GGU-----CACCGucUUGAGGUGGUa-GGCGA- -5'
18363 5' -55.5 NC_004681.1 + 55247 0.68 0.677247
Target:  5'- aCAGUgucaucuGGCGGAuugauUUCCGCCAgcgCCGCc -3'
miRNA:   3'- gGUCA-------CCGUCUu----GAGGUGGUa--GGCGa -5'
18363 5' -55.5 NC_004681.1 + 67321 0.68 0.656891
Target:  5'- gCGGgGGCGGu-CU-CACCGUCCGCg -3'
miRNA:   3'- gGUCaCCGUCuuGAgGUGGUAGGCGa -5'
18363 5' -55.5 NC_004681.1 + 47830 0.69 0.60311
Target:  5'- aCCGcUGGUAGGACUacugCCGCCGUugCCGCc -3'
miRNA:   3'- -GGUcACCGUCUUGA----GGUGGUA--GGCGa -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.