miRNA display CGI


Results 1 - 20 of 22 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
12582 5' -62.2 NC_003345.1 + 67659 0.66 0.544904
Target:  5'- gGGGCUuccucUCGGGG-GAauaGGAACaCGGGg -3'
miRNA:   3'- -CCCGGcu---GGCCCCuCUg--CCUUG-GCCC- -5'
12582 5' -62.2 NC_003345.1 + 38324 0.66 0.543929
Target:  5'- -aGCCGAaucuucucccaauCCGGGGAGcCGu--CCGGGu -3'
miRNA:   3'- ccCGGCU-------------GGCCCCUCuGCcuuGGCCC- -5'
12582 5' -62.2 NC_003345.1 + 37789 0.66 0.496917
Target:  5'- aGGuGCgCGACCGGGuuccGAUGGGGaCGGGu -3'
miRNA:   3'- -CC-CG-GCUGGCCCcu--CUGCCUUgGCCC- -5'
12582 5' -62.2 NC_003345.1 + 76779 0.67 0.459941
Target:  5'- -uGCUaaGCCGGGGAGcgcacgacacGCGaGGGCCGGGu -3'
miRNA:   3'- ccCGGc-UGGCCCCUC----------UGC-CUUGGCCC- -5'
12582 5' -62.2 NC_003345.1 + 33072 0.67 0.450029
Target:  5'- cGGGCCGaccgccaacccGCCGGaGGAaaccgagaaguacGACGGGGCCu-- -3'
miRNA:   3'- -CCCGGC-----------UGGCC-CCU-------------CUGCCUUGGccc -5'
12582 5' -62.2 NC_003345.1 + 77445 0.68 0.415867
Target:  5'- aGGGUacaagcccgagCGACgGGGGAcAgGGGACgGGGg -3'
miRNA:   3'- -CCCG-----------GCUGgCCCCUcUgCCUUGgCCC- -5'
12582 5' -62.2 NC_003345.1 + 158 0.68 0.415867
Target:  5'- aGGGUacaagcccgagCGACgGGGGAcAgGGGACgGGGg -3'
miRNA:   3'- -CCCG-----------GCUGgCCCCUcUgCCUUGgCCC- -5'
12582 5' -62.2 NC_003345.1 + 31109 0.68 0.407366
Target:  5'- --cCCGACCGGGGA-ACGGAuguucgucgUCGGGg -3'
miRNA:   3'- cccGGCUGGCCCCUcUGCCUu--------GGCCC- -5'
12582 5' -62.2 NC_003345.1 + 916 0.68 0.398142
Target:  5'- cGGUCGGCCcguaacaGGGGc--CGGAACCGGa -3'
miRNA:   3'- cCCGGCUGG-------CCCCucuGCCUUGGCCc -5'
12582 5' -62.2 NC_003345.1 + 77615 0.68 0.390696
Target:  5'- cGGGCagggGGCgGGGGgagAGACGGcccGCgCGGGg -3'
miRNA:   3'- -CCCGg---CUGgCCCC---UCUGCCu--UG-GCCC- -5'
12582 5' -62.2 NC_003345.1 + 328 0.68 0.390696
Target:  5'- cGGGCagggGGCgGGGGgagAGACGGcccGCgCGGGg -3'
miRNA:   3'- -CCCGg---CUGgCCCC---UCUGCCu--UG-GCCC- -5'
12582 5' -62.2 NC_003345.1 + 1333 0.69 0.374477
Target:  5'- aGGCCcgaaaGCgGGGGAGACGGcccCCGuGGu -3'
miRNA:   3'- cCCGGc----UGgCCCCUCUGCCuu-GGC-CC- -5'
12582 5' -62.2 NC_003345.1 + 3021 0.69 0.335968
Target:  5'- aGGCCcuuCCGGGGAGucgaacccCGGAGCCGc- -3'
miRNA:   3'- cCCGGcu-GGCCCCUCu-------GCCUUGGCcc -5'
12582 5' -62.2 NC_003345.1 + 48681 0.7 0.328621
Target:  5'- cGGCUGGCCGGGG---CGGuucAUCGGGu -3'
miRNA:   3'- cCCGGCUGGCCCCucuGCCu--UGGCCC- -5'
12582 5' -62.2 NC_003345.1 + 60797 0.7 0.328621
Target:  5'- gGGGgCGAuuCCGGuGGAGAC---ACCGGGa -3'
miRNA:   3'- -CCCgGCU--GGCC-CCUCUGccuUGGCCC- -5'
12582 5' -62.2 NC_003345.1 + 1069 0.7 0.320678
Target:  5'- aGGCCcgucuuaguACgGGGGAGAUuuaccggcccuuaGGGGCCGGGg -3'
miRNA:   3'- cCCGGc--------UGgCCCCUCUG-------------CCUUGGCCC- -5'
12582 5' -62.2 NC_003345.1 + 1367 0.71 0.269113
Target:  5'- cGGGCCGuacuucaaacguaacACCGGGaaacacguuCGGGGCCGGGc -3'
miRNA:   3'- -CCCGGC---------------UGGCCCcucu-----GCCUUGGCCC- -5'
12582 5' -62.2 NC_003345.1 + 35289 0.71 0.261707
Target:  5'- -cGCCGA-UGGGGAGAacGAACCGGGc -3'
miRNA:   3'- ccCGGCUgGCCCCUCUgcCUUGGCCC- -5'
12582 5' -62.2 NC_003345.1 + 443 0.72 0.221774
Target:  5'- gGGGagaGACgGGGaGAGACGGAcggaACCGGa -3'
miRNA:   3'- -CCCgg-CUGgCCC-CUCUGCCU----UGGCCc -5'
12582 5' -62.2 NC_003345.1 + 77570 0.78 0.097014
Target:  5'- gGGGCCGACCGGcccgaGAGACGG-GCaGGGg -3'
miRNA:   3'- -CCCGGCUGGCCc----CUCUGCCuUGgCCC- -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.