miRNA display CGI


Results 1 - 19 of 19 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
23095 5' -59.1 NC_005178.1 + 14182 0.7 0.197854
Target:  5'- aUCGCCCgacUGCCGcccUGGuGCGACgccccGGUg -3'
miRNA:   3'- aAGCGGGa--ACGGC---ACC-CGCUGaa---CCG- -5'
23095 5' -59.1 NC_005178.1 + 6330 0.66 0.384303
Target:  5'- gUCGCCCcaGuCCG-GGGCGAacguccaGGCg -3'
miRNA:   3'- aAGCGGGaaC-GGCaCCCGCUgaa----CCG- -5'
23095 5' -59.1 NC_005178.1 + 13850 0.68 0.301022
Target:  5'- gUCGCCCUgcgccaccggcuUGCCGgcaUGGGUGugaUUGGg -3'
miRNA:   3'- aAGCGGGA------------ACGGC---ACCCGCug-AACCg -5'
23095 5' -59.1 NC_005178.1 + 27717 0.68 0.293506
Target:  5'- aUCGUCCaUGCCcagcUGGGC--CUUGGCg -3'
miRNA:   3'- aAGCGGGaACGGc---ACCCGcuGAACCG- -5'
23095 5' -59.1 NC_005178.1 + 14549 0.68 0.286136
Target:  5'- gUCGUCCUUGaCC-UGGGUGuGCaggUUGGCa -3'
miRNA:   3'- aAGCGGGAAC-GGcACCCGC-UG---AACCG- -5'
23095 5' -59.1 NC_005178.1 + 19691 0.68 0.278912
Target:  5'- -aCGUCCUggaccucGCCGaGGGCGGCa-GGCg -3'
miRNA:   3'- aaGCGGGAa------CGGCaCCCGCUGaaCCG- -5'
23095 5' -59.1 NC_005178.1 + 23331 0.68 0.278912
Target:  5'- --gGCCCUUGCCGgcgcccUGGGgGAaguccaUGGCc -3'
miRNA:   3'- aagCGGGAACGGC------ACCCgCUga----ACCG- -5'
23095 5' -59.1 NC_005178.1 + 14107 0.68 0.278912
Target:  5'- -gCGCCCUgGCCGUcgcccuGGGCGuc--GGCg -3'
miRNA:   3'- aaGCGGGAaCGGCA------CCCGCugaaCCG- -5'
23095 5' -59.1 NC_005178.1 + 16806 0.69 0.257444
Target:  5'- -aCGCCCggcgcucUGCUGUugggucaGGGCGGCgaugGGCu -3'
miRNA:   3'- aaGCGGGa------ACGGCA-------CCCGCUGaa--CCG- -5'
23095 5' -59.1 NC_005178.1 + 15278 0.69 0.225689
Target:  5'- aUCGCCCgccGCCuggcGGGCcagccuggcggucGGCUUGGCg -3'
miRNA:   3'- aAGCGGGaa-CGGca--CCCG-------------CUGAACCG- -5'
23095 5' -59.1 NC_005178.1 + 9665 0.73 0.123362
Target:  5'- gUCGCCCcguugacccagUUGCCcUGGGCGGCcUGGa -3'
miRNA:   3'- aAGCGGG-----------AACGGcACCCGCUGaACCg -5'
23095 5' -59.1 NC_005178.1 + 8746 1.08 0.000271
Target:  5'- cUUCGCCCUUGCCGUGGGCGACUUGGCc -3'
miRNA:   3'- -AAGCGGGAACGGCACCCGCUGAACCG- -5'
23095 5' -59.1 NC_005178.1 + 12370 0.66 0.393429
Target:  5'- -cCGCCCagGCCacuaccGGCGGcCUUGGCu -3'
miRNA:   3'- aaGCGGGaaCGGcac---CCGCU-GAACCG- -5'
23095 5' -59.1 NC_005178.1 + 18115 0.67 0.33257
Target:  5'- -cCGCCauggUGCUGUGGGa-GCgUGGCa -3'
miRNA:   3'- aaGCGGga--ACGGCACCCgcUGaACCG- -5'
23095 5' -59.1 NC_005178.1 + 23316 0.67 0.331753
Target:  5'- cUCGCCUUgcgucuaUGUCGUcuaccuGGGCGACgagaucGGCa -3'
miRNA:   3'- aAGCGGGA-------ACGGCA------CCCGCUGaa----CCG- -5'
23095 5' -59.1 NC_005178.1 + 18279 0.67 0.307914
Target:  5'- cUCGCCCUggGCCGUuacaggaGGGUucGCUaaUGGCc -3'
miRNA:   3'- aAGCGGGAa-CGGCA-------CCCGc-UGA--ACCG- -5'
23095 5' -59.1 NC_005178.1 + 27659 0.68 0.271835
Target:  5'- -cCGCCgcUGCCGUGGGCaug--GGCg -3'
miRNA:   3'- aaGCGGgaACGGCACCCGcugaaCCG- -5'
23095 5' -59.1 NC_005178.1 + 5538 0.68 0.264903
Target:  5'- gUCGCCUgccugcGCC-UGGGCGGCUacgucgaGGCg -3'
miRNA:   3'- aAGCGGGaa----CGGcACCCGCUGAa------CCG- -5'
23095 5' -59.1 NC_005178.1 + 28183 0.71 0.182328
Target:  5'- -cCGCCUcgGCCGgcgcccuGGCGACUgcUGGCg -3'
miRNA:   3'- aaGCGGGaaCGGCac-----CCGCUGA--ACCG- -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.