miRNA display CGI


Results 1 - 18 of 18 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
7643 5' -63.9 NC_001973.1 + 85324 0.66 0.616579
Target:  5'- gCGGCUCaCGUUCGAgGUCGGcucuucgagcccGACGCGc -3'
miRNA:   3'- aGCCGGGgGCAGGCU-CAGCC------------CUGCGC- -5'
7643 5' -63.9 NC_001973.1 + 155952 0.72 0.295142
Target:  5'- gUCGGCCUCCG-CCGAgGUgGuGGACGaCGa -3'
miRNA:   3'- -AGCCGGGGGCaGGCU-CAgC-CCUGC-GC- -5'
7643 5' -63.9 NC_001973.1 + 159117 0.7 0.379345
Target:  5'- cUCGGCCCgcgaCUGagCGAGUCGGaGCGCa -3'
miRNA:   3'- -AGCCGGG----GGCagGCUCAGCCcUGCGc -5'
7643 5' -63.9 NC_001973.1 + 109031 0.69 0.418065
Target:  5'- gUCGGCucguccaCCUCGUCuCGGuuGUCGGGcCGCGg -3'
miRNA:   3'- -AGCCG-------GGGGCAG-GCU--CAGCCCuGCGC- -5'
7643 5' -63.9 NC_001973.1 + 70547 0.69 0.443769
Target:  5'- aCGGCCuCCCGU--GAGcCGGGACcGCa -3'
miRNA:   3'- aGCCGG-GGGCAggCUCaGCCCUG-CGc -5'
7643 5' -63.9 NC_001973.1 + 60000 0.69 0.469469
Target:  5'- cCGGCgacCCCCGUCUGAugGUCGGcuacaagaaGACGUGc -3'
miRNA:   3'- aGCCG---GGGGCAGGCU--CAGCC---------CUGCGC- -5'
7643 5' -63.9 NC_001973.1 + 69975 0.68 0.477326
Target:  5'- aUGGCCCacuugagaaCGUCCGAGucgucgaUCGGGcCGCc -3'
miRNA:   3'- aGCCGGGg--------GCAGGCUC-------AGCCCuGCGc -5'
7643 5' -63.9 NC_001973.1 + 150869 0.68 0.478203
Target:  5'- cCGGgCCUgGcCgGAGcCGGGGCGCGu -3'
miRNA:   3'- aGCCgGGGgCaGgCUCaGCCCUGCGC- -5'
7643 5' -63.9 NC_001973.1 + 26979 0.68 0.522999
Target:  5'- uUCGGUCaCCagacucUCCGuGUCGGG-CGCGg -3'
miRNA:   3'- -AGCCGG-GGgc----AGGCuCAGCCCuGCGC- -5'
7643 5' -63.9 NC_001973.1 + 109216 0.68 0.522999
Target:  5'- cUCGGCCUCgaucgCGUCCaGGUCcGGGAUcaGCGa -3'
miRNA:   3'- -AGCCGGGG-----GCAGGcUCAG-CCCUG--CGC- -5'
7643 5' -63.9 NC_001973.1 + 77295 0.67 0.532157
Target:  5'- cUCcGCCgCCG-CCGAGaCGGGcgGCGCGg -3'
miRNA:   3'- -AGcCGGgGGCaGGCUCaGCCC--UGCGC- -5'
7643 5' -63.9 NC_001973.1 + 158437 0.67 0.532157
Target:  5'- aUCGcGCCCgCGUCCGAGcCGGcuCGUc -3'
miRNA:   3'- -AGC-CGGGgGCAGGCUCaGCCcuGCGc -5'
7643 5' -63.9 NC_001973.1 + 73694 0.67 0.541373
Target:  5'- -gGGgCCCCG-CCGcgcAGUCGacGGGCGCGc -3'
miRNA:   3'- agCCgGGGGCaGGC---UCAGC--CCUGCGC- -5'
7643 5' -63.9 NC_001973.1 + 26545 0.67 0.578714
Target:  5'- gUCGGCCgagcgcaaCCauUCCGAGUCGcGGGCGa- -3'
miRNA:   3'- -AGCCGG--------GGgcAGGCUCAGC-CCUGCgc -5'
7643 5' -63.9 NC_001973.1 + 60980 0.66 0.607082
Target:  5'- aCGucGUCgUCGUUCGAGUCGGGGC-CGa -3'
miRNA:   3'- aGC--CGGgGGCAGGCUCAGCCCUGcGC- -5'
7643 5' -63.9 NC_001973.1 + 34339 0.66 0.607082
Target:  5'- gUUGaGCUCCCaG-CgCGAGUCGGG-CGCGu -3'
miRNA:   3'- -AGC-CGGGGG-CaG-GCUCAGCCCuGCGC- -5'
7643 5' -63.9 NC_001973.1 + 69647 0.66 0.615628
Target:  5'- gCGcGCCCuCCGUUuugcuccgcagcaCGAgGUCGGG-CGCGg -3'
miRNA:   3'- aGC-CGGG-GGCAG-------------GCU-CAGCCCuGCGC- -5'
7643 5' -63.9 NC_001973.1 + 154992 1.08 0.000868
Target:  5'- uUCGGCCCCCGUCCGAGUCGGGACGCGa -3'
miRNA:   3'- -AGCCGGGGGCAGGCUCAGCCCUGCGC- -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.