miRNA display CGI


Results 1 - 16 of 16 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
20598 3' -55.8 NC_004688.1 + 26785 0.66 0.859515
Target:  5'- cGCugCGGUGGCCgCGGAGCuugagggcucuGAU-CCGg -3'
miRNA:   3'- aUGugGUCGUUGG-GCCUCG-----------CUAaGGC- -5'
20598 3' -55.8 NC_004688.1 + 86883 0.66 0.82631
Target:  5'- -cCGCCAGCGcCCCGGAGaugc-CCGc -3'
miRNA:   3'- auGUGGUCGUuGGGCCUCgcuaaGGC- -5'
20598 3' -55.8 NC_004688.1 + 94721 0.66 0.82544
Target:  5'- cGCACCaaGGCuuaugcggaagaaAACCCGuGGGCGAagUUCCu -3'
miRNA:   3'- aUGUGG--UCG-------------UUGGGC-CUCGCU--AAGGc -5'
20598 3' -55.8 NC_004688.1 + 36487 0.67 0.817523
Target:  5'- aGCGCCGGCuccacACCCGGGagauGcCGAUgaugCCGu -3'
miRNA:   3'- aUGUGGUCGu----UGGGCCU----C-GCUAa---GGC- -5'
20598 3' -55.8 NC_004688.1 + 50905 0.67 0.816634
Target:  5'- cGCGCCGGCGaccaagcGCCCGGuuGGC---UCCGu -3'
miRNA:   3'- aUGUGGUCGU-------UGGGCC--UCGcuaAGGC- -5'
20598 3' -55.8 NC_004688.1 + 75913 0.67 0.799422
Target:  5'- -uCGCCAGCGcCCCGGcAGCGucgaggaaGUUCgGg -3'
miRNA:   3'- auGUGGUCGUuGGGCC-UCGC--------UAAGgC- -5'
20598 3' -55.8 NC_004688.1 + 71909 0.67 0.799422
Target:  5'- gGCcCCGGCAAcCCCGGAgGUGAcgcucgucaggcUUCCa -3'
miRNA:   3'- aUGuGGUCGUU-GGGCCU-CGCU------------AAGGc -5'
20598 3' -55.8 NC_004688.1 + 47668 0.67 0.790127
Target:  5'- -uCGCCAccGCGACugguCCGGGGCgGAUUCCc -3'
miRNA:   3'- auGUGGU--CGUUG----GGCCUCG-CUAAGGc -5'
20598 3' -55.8 NC_004688.1 + 21059 0.67 0.790127
Target:  5'- gUACGCCAGCgAugUCGGGGCcgcgccagCCGg -3'
miRNA:   3'- -AUGUGGUCG-UugGGCCUCGcuaa----GGC- -5'
20598 3' -55.8 NC_004688.1 + 18756 0.68 0.741591
Target:  5'- cGCuCCAGUuGgCCGGAuGCGggUCCGg -3'
miRNA:   3'- aUGuGGUCGuUgGGCCU-CGCuaAGGC- -5'
20598 3' -55.8 NC_004688.1 + 84802 0.68 0.7214
Target:  5'- cGCACCGcccGCAGCaCCGGGGgcaCGGcUCCGg -3'
miRNA:   3'- aUGUGGU---CGUUG-GGCCUC---GCUaAGGC- -5'
20598 3' -55.8 NC_004688.1 + 98069 0.69 0.680124
Target:  5'- cGCGCUAGCcauuCCCGGuauuGCGGUUCa- -3'
miRNA:   3'- aUGUGGUCGuu--GGGCCu---CGCUAAGgc -5'
20598 3' -55.8 NC_004688.1 + 81147 0.69 0.669677
Target:  5'- aACGCCAGCAgcgggucguuGCCCGGcuGGgGAUcacCCGg -3'
miRNA:   3'- aUGUGGUCGU----------UGGGCC--UCgCUAa--GGC- -5'
20598 3' -55.8 NC_004688.1 + 87813 0.7 0.617139
Target:  5'- cUGCGCCAGCAGCauaaggauggCCGGGGUGAgggcaaggcUCUGa -3'
miRNA:   3'- -AUGUGGUCGUUG----------GGCCUCGCUa--------AGGC- -5'
20598 3' -55.8 NC_004688.1 + 79623 0.7 0.596147
Target:  5'- cGCGCCGGCGACCUGcgucuGAGCGAacaCCc -3'
miRNA:   3'- aUGUGGUCGUUGGGC-----CUCGCUaa-GGc -5'
20598 3' -55.8 NC_004688.1 + 17897 0.75 0.3344
Target:  5'- cACACCAGCGGCUcuaCGGccgcGGCGAUUCUGc -3'
miRNA:   3'- aUGUGGUCGUUGG---GCC----UCGCUAAGGC- -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.