miRNA display CGI


Results 1 - 20 of 28 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
20721 3' -61.1 NC_004688.1 + 101792 0.66 0.657456
Target:  5'- aACCGAG-AGCCuccggaaGGGagcgcaggccgacGCUGGUGGUCg -3'
miRNA:   3'- gUGGCUCuUCGG-------CCC-------------UGGCCGCCAGg -5'
20721 3' -61.1 NC_004688.1 + 32261 0.69 0.481011
Target:  5'- aCACCGGGGAagguuuaucggggcGCUcaGGGAUCauccGCGGUCCa -3'
miRNA:   3'- -GUGGCUCUU--------------CGG--CCCUGGc---CGCCAGG- -5'
20721 3' -61.1 NC_004688.1 + 84831 0.68 0.520481
Target:  5'- -uCCGGGGAGgcccgugggcauaCCGGuGCUGaGCGGUCCg -3'
miRNA:   3'- guGGCUCUUC-------------GGCCcUGGC-CGCCAGG- -5'
20721 3' -61.1 NC_004688.1 + 62158 0.68 0.53007
Target:  5'- uCACCGAGAAGCCaGagccacgagacccGAUCGGCacGGUgCg -3'
miRNA:   3'- -GUGGCUCUUCGGcC-------------CUGGCCG--CCAgG- -5'
20721 3' -61.1 NC_004688.1 + 24971 0.68 0.531032
Target:  5'- aCACCG-GAGcGuuGGGACCGaGCcccccGGUCUc -3'
miRNA:   3'- -GUGGCuCUU-CggCCCUGGC-CG-----CCAGG- -5'
20721 3' -61.1 NC_004688.1 + 36137 0.67 0.554309
Target:  5'- gACCGAGAAcGUgGGGAcaccuuuccgguugaCCaGGCGGgugCCg -3'
miRNA:   3'- gUGGCUCUU-CGgCCCU---------------GG-CCGCCa--GG- -5'
20721 3' -61.1 NC_004688.1 + 8495 0.67 0.560177
Target:  5'- gGCCGGcGGAGCa-GGugUGGCcGGUCUa -3'
miRNA:   3'- gUGGCU-CUUCGgcCCugGCCG-CCAGG- -5'
20721 3' -61.1 NC_004688.1 + 52055 0.67 0.568027
Target:  5'- uCGCCGGc--GCCGGGGCCaucgccaccaccGCGGUCUc -3'
miRNA:   3'- -GUGGCUcuuCGGCCCUGGc-----------CGCCAGG- -5'
20721 3' -61.1 NC_004688.1 + 84471 0.67 0.598677
Target:  5'- cCGCCGAGGccgccggAGCUGccGGACCGGCcaucgCCg -3'
miRNA:   3'- -GUGGCUCU-------UCGGC--CCUGGCCGcca--GG- -5'
20721 3' -61.1 NC_004688.1 + 56986 0.7 0.421276
Target:  5'- gGCCGAGAAGCCGcccucccccuuGGugCGGUacUCCc -3'
miRNA:   3'- gUGGCUCUUCGGC-----------CCugGCCGccAGG- -5'
20721 3' -61.1 NC_004688.1 + 55044 0.7 0.412748
Target:  5'- gAUCGAGGugggcGCCGcGACCGGCGG-CUa -3'
miRNA:   3'- gUGGCUCUu----CGGCcCUGGCCGCCaGG- -5'
20721 3' -61.1 NC_004688.1 + 86958 0.7 0.396015
Target:  5'- uGCCGAGuccGCCGGcgaGGCCGGCGaUCa -3'
miRNA:   3'- gUGGCUCuu-CGGCC---CUGGCCGCcAGg -5'
20721 3' -61.1 NC_004688.1 + 27957 0.78 0.125023
Target:  5'- cCACCGAGGuaGGCgGGGACCGGCcaguGG-CCu -3'
miRNA:   3'- -GUGGCUCU--UCGgCCCUGGCCG----CCaGG- -5'
20721 3' -61.1 NC_004688.1 + 66614 0.74 0.242475
Target:  5'- gGCCGcaAGcAGUCGGGGCCGGCGaugCCg -3'
miRNA:   3'- gUGGC--UCuUCGGCCCUGGCCGCca-GG- -5'
20721 3' -61.1 NC_004688.1 + 93426 0.73 0.260092
Target:  5'- gGCCGGgugaacGAAGUCGGGugCGGUGcUCCa -3'
miRNA:   3'- gUGGCU------CUUCGGCCCugGCCGCcAGG- -5'
20721 3' -61.1 NC_004688.1 + 89731 0.72 0.291752
Target:  5'- cCGCgGAGGcAGUCGGGGCCgagguGGUGGUCa -3'
miRNA:   3'- -GUGgCUCU-UCGGCCCUGG-----CCGCCAGg -5'
20721 3' -61.1 NC_004688.1 + 75381 0.72 0.333621
Target:  5'- gGCCGAcGggGCUGaGcCCGcGCGGUCCc -3'
miRNA:   3'- gUGGCU-CuuCGGCcCuGGC-CGCCAGG- -5'
20721 3' -61.1 NC_004688.1 + 82670 0.72 0.333621
Target:  5'- gAUCGGGAAGCCGcugcgcaugacGGuguACUGGCGGUCg -3'
miRNA:   3'- gUGGCUCUUCGGC-----------CC---UGGCCGCCAGg -5'
20721 3' -61.1 NC_004688.1 + 82467 0.71 0.371753
Target:  5'- -uCCGGGAAGCCGGG-CUGGUcG-CCg -3'
miRNA:   3'- guGGCUCUUCGGCCCuGGCCGcCaGG- -5'
20721 3' -61.1 NC_004688.1 + 105644 0.71 0.379727
Target:  5'- aGCCGAGcAGGUaCGGGucgACCGGaaGGUCCg -3'
miRNA:   3'- gUGGCUC-UUCG-GCCC---UGGCCg-CCAGG- -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.