miRNA display CGI


Results 1 - 20 of 27 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
22964 5' -59.1 NC_005137.2 + 110823 1.1 0.00129
Target:  5'- cGCCCGCCGACGCGCAAGAGUCGUGCGc -3'
miRNA:   3'- -CGGGCGGCUGCGCGUUCUCAGCACGC- -5'
22964 5' -59.1 NC_005137.2 + 33048 0.73 0.355969
Target:  5'- aGCaaaUGCCGACGCGUucuAGAGaUUGUGCa -3'
miRNA:   3'- -CGg--GCGGCUGCGCGu--UCUC-AGCACGc -5'
22964 5' -59.1 NC_005137.2 + 96306 0.73 0.387792
Target:  5'- cGCCgacaCGCCGGCGCGCAAGuGUgGacUGCc -3'
miRNA:   3'- -CGG----GCGGCUGCGCGUUCuCAgC--ACGc -5'
22964 5' -59.1 NC_005137.2 + 104052 0.72 0.412854
Target:  5'- cGCCCuuugugGCCGugGCGCcuucGUCGUGCu -3'
miRNA:   3'- -CGGG------CGGCugCGCGuucuCAGCACGc -5'
22964 5' -59.1 NC_005137.2 + 30797 0.7 0.509707
Target:  5'- -gUCGUCGACGCGCAccagcaacacguugGGAGU-GUGCGc -3'
miRNA:   3'- cgGGCGGCUGCGCGU--------------UCUCAgCACGC- -5'
22964 5' -59.1 NC_005137.2 + 22513 0.7 0.516391
Target:  5'- cGCCUGCCGACGUGCAcccauuGcuugugucgccaaauUCGUGCa -3'
miRNA:   3'- -CGGGCGGCUGCGCGUucu---C---------------AGCACGc -5'
22964 5' -59.1 NC_005137.2 + 117912 0.69 0.590841
Target:  5'- gGCCCGUCGACGauaaGCAGcucGAGaagCGUGUu -3'
miRNA:   3'- -CGGGCGGCUGCg---CGUU---CUCa--GCACGc -5'
22964 5' -59.1 NC_005137.2 + 43926 0.69 0.620833
Target:  5'- aCCCGCUGGCGCGCuGGuAGUa--GCGu -3'
miRNA:   3'- cGGGCGGCUGCGCGuUC-UCAgcaCGC- -5'
22964 5' -59.1 NC_005137.2 + 91408 0.68 0.649897
Target:  5'- aGUuuGCCGAccaauaccuuaaaCGCGCAGGcGUCGcGCa -3'
miRNA:   3'- -CGggCGGCU-------------GCGCGUUCuCAGCaCGc -5'
22964 5' -59.1 NC_005137.2 + 96566 0.68 0.660901
Target:  5'- gGCgCGUCGcCGCGCGGGuagcGGUCG-GCGc -3'
miRNA:   3'- -CGgGCGGCuGCGCGUUC----UCAGCaCGC- -5'
22964 5' -59.1 NC_005137.2 + 50773 0.68 0.670882
Target:  5'- aGCCCcguGCCGGCGUGUAuGAGUac-GCGu -3'
miRNA:   3'- -CGGG---CGGCUGCGCGUuCUCAgcaCGC- -5'
22964 5' -59.1 NC_005137.2 + 43833 0.67 0.706505
Target:  5'- cGCCCGUCGaACGCGauuugcaCGUGCGa -3'
miRNA:   3'- -CGGGCGGC-UGCGCguucucaGCACGC- -5'
22964 5' -59.1 NC_005137.2 + 100145 0.67 0.710421
Target:  5'- aGCUCGCCcacguacgGGCGCGCc-GGGUCGUcaGCu -3'
miRNA:   3'- -CGGGCGG--------CUGCGCGuuCUCAGCA--CGc -5'
22964 5' -59.1 NC_005137.2 + 67705 0.67 0.710421
Target:  5'- uCCCGCuCGGCGCGCGu---UUGUGCc -3'
miRNA:   3'- cGGGCG-GCUGCGCGUucucAGCACGc -5'
22964 5' -59.1 NC_005137.2 + 110554 0.67 0.710421
Target:  5'- uGCCCGCCGAUGUGCGcccgcaccuGcGUCuugGCGc -3'
miRNA:   3'- -CGGGCGGCUGCGCGUu--------CuCAGca-CGC- -5'
22964 5' -59.1 NC_005137.2 + 95599 0.67 0.719196
Target:  5'- cGCCCGCgcacugugcgCGACGUGCuguuuaacGAGUCGUuuuuuccGCGu -3'
miRNA:   3'- -CGGGCG----------GCUGCGCGuu------CUCAGCA-------CGC- -5'
22964 5' -59.1 NC_005137.2 + 95637 0.67 0.739435
Target:  5'- cGCCCGUgCGGCGCGCAuccgaccGGUaCGUuGCa -3'
miRNA:   3'- -CGGGCG-GCUGCGCGUuc-----UCA-GCA-CGc -5'
22964 5' -59.1 NC_005137.2 + 2320 0.67 0.739435
Target:  5'- -aCCGCa-ACGCGCucguGGAGgCGUGCa -3'
miRNA:   3'- cgGGCGgcUGCGCGu---UCUCaGCACGc -5'
22964 5' -59.1 NC_005137.2 + 70125 0.67 0.739435
Target:  5'- uCCCGCUGugGUc--GGuGUCGUGCa -3'
miRNA:   3'- cGGGCGGCugCGcguUCuCAGCACGc -5'
22964 5' -59.1 NC_005137.2 + 61392 0.66 0.746097
Target:  5'- aUCCGCCGcguuuGCGCGCAuuauGAGUUuguacaagaacaaaGUGUGg -3'
miRNA:   3'- cGGGCGGC-----UGCGCGUu---CUCAG--------------CACGC- -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.