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
1260 5' -60.8 NC_001317.1 + 30431 0.71 0.116914
Target:  5'- uUUAUGCCACUuuuccacgaauuUCCCGUuuuuuUAGCCGUGCa -3'
miRNA:   3'- -AGUACGGUGGu-----------GGGGCG-----GUCGGCACG- -5'
1260 5' -60.8 NC_001317.1 + 14777 0.7 0.155663
Target:  5'- ---cGCCACCGCCCgCGCacuCGGUcugCGUGCc -3'
miRNA:   3'- aguaCGGUGGUGGG-GCG---GUCG---GCACG- -5'
1260 5' -60.8 NC_001317.1 + 4240 0.68 0.210141
Target:  5'- aCcgGCaaauGCUACCUCGUCGGCCuUGCu -3'
miRNA:   3'- aGuaCGg---UGGUGGGGCGGUCGGcACG- -5'
1260 5' -60.8 NC_001317.1 + 1213 0.67 0.227621
Target:  5'- cUCAUGCUGCCACCUCaCCcGCUGcaacaGCg -3'
miRNA:   3'- -AGUACGGUGGUGGGGcGGuCGGCa----CG- -5'
1260 5' -60.8 NC_001317.1 + 8506 0.67 0.239946
Target:  5'- ---cGCCGCUgguauaacgcuGCUCUGCCugauGCUGUGCg -3'
miRNA:   3'- aguaCGGUGG-----------UGGGGCGGu---CGGCACG- -5'
1260 5' -60.8 NC_001317.1 + 7617 0.67 0.252823
Target:  5'- aCAUGUCACUG-CCCGCCG--UGUGCg -3'
miRNA:   3'- aGUACGGUGGUgGGGCGGUcgGCACG- -5'
1260 5' -60.8 NC_001317.1 + 9859 0.72 0.111084
Target:  5'- ---gGCUgACCACCCgCGCCGGUCGUucGCg -3'
miRNA:   3'- aguaCGG-UGGUGGG-GCGGUCGGCA--CG- -5'
1260 5' -60.8 NC_001317.1 + 28195 0.66 0.287501
Target:  5'- -uGUGCCAgCGCgCCGCCcauGCUgaaacggcggGUGCa -3'
miRNA:   3'- agUACGGUgGUGgGGCGGu--CGG----------CACG- -5'
1260 5' -60.8 NC_001317.1 + 19595 0.66 0.280277
Target:  5'- gUCAg--CACCGCCCCGCgCAGUgGUa- -3'
miRNA:   3'- -AGUacgGUGGUGGGGCG-GUCGgCAcg -5'
1260 5' -60.8 NC_001317.1 + 16162 0.66 0.279563
Target:  5'- --cUG-CGCCACCgCCGCCAgacugacGCCGcGCa -3'
miRNA:   3'- aguACgGUGGUGG-GGCGGU-------CGGCaCG- -5'
1260 5' -60.8 NC_001317.1 + 24063 0.66 0.278138
Target:  5'- -gGUGCCAgCGCUugCCGuccuuaccugcgauCCAGCCGUGg -3'
miRNA:   3'- agUACGGUgGUGG--GGC--------------GGUCGGCACg -5'
1260 5' -60.8 NC_001317.1 + 14716 0.66 0.264894
Target:  5'- aUAUGCCAUCGCCUCGgaaauggucuuaCAGCCccaUGCg -3'
miRNA:   3'- aGUACGGUGGUGGGGCg-----------GUCGGc--ACG- -5'
1260 5' -60.8 NC_001317.1 + 19623 0.67 0.227621
Target:  5'- ---cGCCGa-ACCCUGCCAGCCaaGCc -3'
miRNA:   3'- aguaCGGUggUGGGGCGGUCGGcaCG- -5'
1260 5' -60.8 NC_001317.1 + 30592 0.67 0.221661
Target:  5'- gCAUGaCCACUcuggaGCCgCGCCAGCUcugGCg -3'
miRNA:   3'- aGUAC-GGUGG-----UGGgGCGGUCGGca-CG- -5'
1260 5' -60.8 NC_001317.1 + 6310 0.7 0.135395
Target:  5'- -aGUGCCACUuCCUCGaCCAGCauguaagguguCGUGCg -3'
miRNA:   3'- agUACGGUGGuGGGGC-GGUCG-----------GCACG- -5'
1260 5' -60.8 NC_001317.1 + 13426 0.73 0.085813
Target:  5'- gUCAUGCUgGCCugUgCGCCGcGCUGUGCa -3'
miRNA:   3'- -AGUACGG-UGGugGgGCGGU-CGGCACG- -5'
1260 5' -60.8 NC_001317.1 + 4757 0.82 0.015907
Target:  5'- cUCAUcGCCACCACCgCCGCUGGCuuuCGUGCg -3'
miRNA:   3'- -AGUA-CGGUGGUGG-GGCGGUCG---GCACG- -5'
1260 5' -60.8 NC_001317.1 + 8255 1.12 7.4e-05
Target:  5'- uUCAUGCCACCACCCCGCCAGCCGUGCg -3'
miRNA:   3'- -AGUACGGUGGUGGGGCGGUCGGCACG- -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.