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
23233 3' -56.5 NC_005259.1 + 32906 0.66 0.743993
Target:  5'- gGGUGAGCcaccCGGCCcgcucgGGCGCggCGGUa -3'
miRNA:   3'- aCCACUUGca--GCUGG------UCGCGa-GCCAc -5'
23233 3' -56.5 NC_005259.1 + 28024 0.66 0.743993
Target:  5'- gGGUugcGcGCGUUGGCCAGCcacgGCUUGGg- -3'
miRNA:   3'- aCCA---CuUGCAGCUGGUCG----CGAGCCac -5'
23233 3' -56.5 NC_005259.1 + 25937 0.66 0.713077
Target:  5'- cGGUGAGCGcacGCCGGUGCcCGGc- -3'
miRNA:   3'- aCCACUUGCagcUGGUCGCGaGCCac -5'
23233 3' -56.5 NC_005259.1 + 13110 0.66 0.702606
Target:  5'- cGGcccgcucGGCGgcuaCGACCAGCGCaCGGUGu -3'
miRNA:   3'- aCCac-----UUGCa---GCUGGUCGCGaGCCAC- -5'
23233 3' -56.5 NC_005259.1 + 61849 0.67 0.670846
Target:  5'- gGGUGAGCaccUCGGCCAcCGcCUCGcGUGc -3'
miRNA:   3'- aCCACUUGc--AGCUGGUcGC-GAGC-CAC- -5'
23233 3' -56.5 NC_005259.1 + 27384 0.67 0.660176
Target:  5'- cGGUGAccggcggcgGUGUCGGCagcggCGGCaGCUCGGUGc -3'
miRNA:   3'- aCCACU---------UGCAGCUG-----GUCG-CGAGCCAC- -5'
23233 3' -56.5 NC_005259.1 + 58943 0.68 0.595968
Target:  5'- cGGUGGcaGCGUCGgccuugGCCAGCaGgUCGGg- -3'
miRNA:   3'- aCCACU--UGCAGC------UGGUCG-CgAGCCac -5'
23233 3' -56.5 NC_005259.1 + 51059 0.68 0.574706
Target:  5'- --uUGAACcaaUCGAgCAGCGCcUCGGUGg -3'
miRNA:   3'- accACUUGc--AGCUgGUCGCG-AGCCAC- -5'
23233 3' -56.5 NC_005259.1 + 8758 0.68 0.574706
Target:  5'- aGGUcGAgGcccUUGGCCAGCGCggCGGUGa -3'
miRNA:   3'- aCCAcUUgC---AGCUGGUCGCGa-GCCAC- -5'
23233 3' -56.5 NC_005259.1 + 67847 0.69 0.532776
Target:  5'- cGGUGAGCGggUCGACCAa---UCGGUGc -3'
miRNA:   3'- aCCACUUGC--AGCUGGUcgcgAGCCAC- -5'
23233 3' -56.5 NC_005259.1 + 29123 0.69 0.529673
Target:  5'- cUGGUGAGCGcggcgguauucgccUCGcucACC-GCGCUCGGcUGg -3'
miRNA:   3'- -ACCACUUGC--------------AGC---UGGuCGCGAGCC-AC- -5'
23233 3' -56.5 NC_005259.1 + 44277 0.69 0.522457
Target:  5'- aGGccGAACGccUUGGCCAGCGCgagCGGg- -3'
miRNA:   3'- aCCa-CUUGC--AGCUGGUCGCGa--GCCac -5'
23233 3' -56.5 NC_005259.1 + 35655 0.69 0.522457
Target:  5'- cUGGcGAGgGU-GGCCAGCGCggUGGUGg -3'
miRNA:   3'- -ACCaCUUgCAgCUGGUCGCGa-GCCAC- -5'
23233 3' -56.5 NC_005259.1 + 23589 0.69 0.516303
Target:  5'- gUGGUGAGCGUggcacggcaguucccCGcguggcggcaGCCAGacgGCUCGGUGu -3'
miRNA:   3'- -ACCACUUGCA---------------GC----------UGGUCg--CGAGCCAC- -5'
23233 3' -56.5 NC_005259.1 + 60100 0.7 0.491992
Target:  5'- aUGGcGAGC-UCGACCAGCGaCUCGa-- -3'
miRNA:   3'- -ACCaCUUGcAGCUGGUCGC-GAGCcac -5'
23233 3' -56.5 NC_005259.1 + 13448 0.72 0.388348
Target:  5'- gGcGUGAcCGUCGGCgCGGCGCU-GGUGc -3'
miRNA:   3'- aC-CACUuGCAGCUG-GUCGCGAgCCAC- -5'
23233 3' -56.5 NC_005259.1 + 41641 0.73 0.330295
Target:  5'- cGGUGccgGUCuGCgGGCGCUCGGUGa -3'
miRNA:   3'- aCCACuugCAGcUGgUCGCGAGCCAC- -5'
23233 3' -56.5 NC_005259.1 + 53925 0.73 0.329514
Target:  5'- cGGgcaGAucguugGCGUCGACCAGCGUUucccaccCGGUGa -3'
miRNA:   3'- aCCa--CU------UGCAGCUGGUCGCGA-------GCCAC- -5'
23233 3' -56.5 NC_005259.1 + 53506 0.73 0.321775
Target:  5'- cGGUGAacaACGUgcucgUGGCCAGCggcacggGCUCGGUGc -3'
miRNA:   3'- aCCACU---UGCA-----GCUGGUCG-------CGAGCCAC- -5'
23233 3' -56.5 NC_005259.1 + 52584 0.75 0.252491
Target:  5'- cGGccUGAGCGUCGccgagcACCAGCGCcguaCGGUGg -3'
miRNA:   3'- aCC--ACUUGCAGC------UGGUCGCGa---GCCAC- -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.