miRNA display CGI


Results 1 - 19 of 19 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
2226 5' -54.8 NC_001405.1 + 26695 0.66 0.595687
Target:  5'- aGCGGCGGGCGaaggAGAuguugcccccacaguCUUGCAAGc- -3'
miRNA:   3'- cCGUCGUCCGCga--UCU---------------GAACGUUCcu -5'
2226 5' -54.8 NC_001405.1 + 25017 0.66 0.591093
Target:  5'- aGCAGCuGGCGCgcuggcuugAGACgcGCGAGc- -3'
miRNA:   3'- cCGUCGuCCGCGa--------UCUGaaCGUUCcu -5'
2226 5' -54.8 NC_001405.1 + 17441 0.66 0.579633
Target:  5'- gGGCAGUAGuGCGCUGGcggUGCcguacuuccuGGAa -3'
miRNA:   3'- -CCGUCGUC-CGCGAUCugaACGuu--------CCU- -5'
2226 5' -54.8 NC_001405.1 + 17478 0.66 0.545581
Target:  5'- cGGgGGUAGGCGCgaUGGAaggaUGUAGGGc -3'
miRNA:   3'- -CCgUCGUCCGCG--AUCUga--ACGUUCCu -5'
2226 5' -54.8 NC_001405.1 + 23176 0.67 0.523237
Target:  5'- gGGCAGCGcGCGCUgaaggagcAGuCUaGCAAGGc -3'
miRNA:   3'- -CCGUCGUcCGCGA--------UCuGAaCGUUCCu -5'
2226 5' -54.8 NC_001405.1 + 8595 0.67 0.523237
Target:  5'- aGGUAGgGGGgGCUcgGGACccGCcGGGAg -3'
miRNA:   3'- -CCGUCgUCCgCGA--UCUGaaCGuUCCU- -5'
2226 5' -54.8 NC_001405.1 + 17713 0.67 0.501253
Target:  5'- aGGCGGCAGGUGa-GGGCcauaucUGCAAGa- -3'
miRNA:   3'- -CCGUCGUCCGCgaUCUGa-----ACGUUCcu -5'
2226 5' -54.8 NC_001405.1 + 5242 0.67 0.490414
Target:  5'- cGGCAGUAgucGGUGCUcguccAGACggGCcAGGGu -3'
miRNA:   3'- -CCGUCGU---CCGCGA-----UCUGaaCGuUCCU- -5'
2226 5' -54.8 NC_001405.1 + 24209 0.68 0.469073
Target:  5'- aGGUGGUAGGCGCguuGGCg-GCAucgguGGAg -3'
miRNA:   3'- -CCGUCGUCCGCGau-CUGaaCGUu----CCU- -5'
2226 5' -54.8 NC_001405.1 + 8924 0.68 0.448217
Target:  5'- uGGCGGCgAGGuCGUUGGAgaUGCGGGc- -3'
miRNA:   3'- -CCGUCG-UCC-GCGAUCUgaACGUUCcu -5'
2226 5' -54.8 NC_001405.1 + 13967 0.68 0.448217
Target:  5'- cGGCAGCGacagcaGCGUccUGGAUUUGgGAGGGa -3'
miRNA:   3'- -CCGUCGUc-----CGCG--AUCUGAACgUUCCU- -5'
2226 5' -54.8 NC_001405.1 + 13785 0.68 0.437983
Target:  5'- -cCAGCAGGCGC-GGGCggguggUGCGAGu- -3'
miRNA:   3'- ccGUCGUCCGCGaUCUGa-----ACGUUCcu -5'
2226 5' -54.8 NC_001405.1 + 8463 0.69 0.379541
Target:  5'- uGGUGGC-GGCGUcgauGACUUGCAAGaGGc -3'
miRNA:   3'- -CCGUCGuCCGCGau--CUGAACGUUC-CU- -5'
2226 5' -54.8 NC_001405.1 + 18528 0.7 0.334994
Target:  5'- cGGUAGCcauGGGCGCgaugGGACgggUGguGGGc -3'
miRNA:   3'- -CCGUCG---UCCGCGa---UCUGa--ACguUCCu -5'
2226 5' -54.8 NC_001405.1 + 6570 0.71 0.302196
Target:  5'- gGGCAGCAGGCGCgcgucgaagUAGucuauCUUGCAu--- -3'
miRNA:   3'- -CCGUCGUCCGCG---------AUCu----GAACGUuccu -5'
2226 5' -54.8 NC_001405.1 + 18663 0.73 0.231158
Target:  5'- uGGCGGCAcGGCGCagGGACgcgcgGCuAGGGc -3'
miRNA:   3'- -CCGUCGU-CCGCGa-UCUGaa---CGuUCCU- -5'
2226 5' -54.8 NC_001405.1 + 23756 0.74 0.195665
Target:  5'- gGGaUGGCGGGCGCUcGGGCUUGggaGAGGGg -3'
miRNA:   3'- -CC-GUCGUCCGCGA-UCUGAACg--UUCCU- -5'
2226 5' -54.8 NC_001405.1 + 8522 0.77 0.116394
Target:  5'- cGCGGCGGGCGgUGGGCc-GCGGGGGu -3'
miRNA:   3'- cCGUCGUCCGCgAUCUGaaCGUUCCU- -5'
2226 5' -54.8 NC_001405.1 + 6667 1.11 0.000384
Target:  5'- uGGCAGCAGGCGCUAGACUUGCAAGGAu -3'
miRNA:   3'- -CCGUCGUCCGCGAUCUGAACGUUCCU- -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.