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
33171 3' -58.9 NC_007497.1 + 23698 0.66 0.472985
Target:  5'- cGCaCACCgUGAUUGAUaGCCCG-GUGAUg -3'
miRNA:   3'- -UG-GUGG-ACUAGCUAgCGGGCgCGCUA- -5'
33171 3' -58.9 NC_007497.1 + 35130 0.66 0.453091
Target:  5'- aGCCGCaucg-CGAUCGCuCCGCGCc-- -3'
miRNA:   3'- -UGGUGgacuaGCUAGCG-GGCGCGcua -5'
33171 3' -58.9 NC_007497.1 + 486 0.66 0.443316
Target:  5'- cACCGCCgcGGUUGAUCGCCaaCG-GCGGc -3'
miRNA:   3'- -UGGUGGa-CUAGCUAGCGG--GCgCGCUa -5'
33171 3' -58.9 NC_007497.1 + 29204 0.66 0.440407
Target:  5'- cACCACCUGcAUcgccagaaaaagggCGAUCGCcacugCCGCGcCGAUc -3'
miRNA:   3'- -UGGUGGAC-UA--------------GCUAGCG-----GGCGC-GCUA- -5'
33171 3' -58.9 NC_007497.1 + 33329 0.67 0.405448
Target:  5'- cGCCACCgccUCGAcgCGCagCUGCGCGAUc -3'
miRNA:   3'- -UGGUGGacuAGCUa-GCG--GGCGCGCUA- -5'
33171 3' -58.9 NC_007497.1 + 33174 0.67 0.405448
Target:  5'- aGCUGCacgGcgCGAUCGUaggCCGCGCGAa -3'
miRNA:   3'- -UGGUGga-CuaGCUAGCG---GGCGCGCUa -5'
33171 3' -58.9 NC_007497.1 + 24923 0.67 0.396303
Target:  5'- gACCGCCUGGcCGAccaUCGCCUGCa---- -3'
miRNA:   3'- -UGGUGGACUaGCU---AGCGGGCGcgcua -5'
33171 3' -58.9 NC_007497.1 + 21315 0.67 0.378418
Target:  5'- -gCACCUGAUCa---GCgCGCGCGAg -3'
miRNA:   3'- ugGUGGACUAGcuagCGgGCGCGCUa -5'
33171 3' -58.9 NC_007497.1 + 22910 0.68 0.352626
Target:  5'- aACCAgCUUGGUCGAaCGaCCCGCcuagGCGAg -3'
miRNA:   3'- -UGGU-GGACUAGCUaGC-GGGCG----CGCUa -5'
33171 3' -58.9 NC_007497.1 + 23929 0.68 0.335325
Target:  5'- gGCCGugaugauCCcGAUCgGGUCGgCCGCGCGAc -3'
miRNA:   3'- -UGGU-------GGaCUAG-CUAGCgGGCGCGCUa -5'
33171 3' -58.9 NC_007497.1 + 34738 0.68 0.328103
Target:  5'- cGCCGCCgcguagcgcgucUGAUCGAUCGUucccuuggCCGCgGCGGc -3'
miRNA:   3'- -UGGUGG------------ACUAGCUAGCG--------GGCG-CGCUa -5'
33171 3' -58.9 NC_007497.1 + 6633 0.68 0.328103
Target:  5'- gGCgCGCCa---CGGUCGCCgGCGCGAa -3'
miRNA:   3'- -UG-GUGGacuaGCUAGCGGgCGCGCUa -5'
33171 3' -58.9 NC_007497.1 + 34396 0.69 0.312468
Target:  5'- gAUgACCUGAUCGAgcggCGCCUGCauguCGAUc -3'
miRNA:   3'- -UGgUGGACUAGCUa---GCGGGCGc---GCUA- -5'
33171 3' -58.9 NC_007497.1 + 14374 0.7 0.249132
Target:  5'- gUCACCUGAUCaaccgCGCCCGCccuGCGGg -3'
miRNA:   3'- uGGUGGACUAGcua--GCGGGCG---CGCUa -5'
33171 3' -58.9 NC_007497.1 + 36558 0.71 0.230509
Target:  5'- gGCCGCC-GAgcUCGAUCGCCUuCGUGAc -3'
miRNA:   3'- -UGGUGGaCU--AGCUAGCGGGcGCGCUa -5'
33171 3' -58.9 NC_007497.1 + 11051 0.73 0.167448
Target:  5'- gAUCACCgGAUU--UCGCCUGCGCGAa -3'
miRNA:   3'- -UGGUGGaCUAGcuAGCGGGCGCGCUa -5'
33171 3' -58.9 NC_007497.1 + 17487 0.74 0.138225
Target:  5'- aGCCAUgcgcuugaUGAUCGAgacgcCGCCCGCGCGGa -3'
miRNA:   3'- -UGGUGg-------ACUAGCUa----GCGGGCGCGCUa -5'
33171 3' -58.9 NC_007497.1 + 1806 0.76 0.104552
Target:  5'- uGCCGCUUGA-CGGUCGgaaUCCGCGCGAUc -3'
miRNA:   3'- -UGGUGGACUaGCUAGC---GGGCGCGCUA- -5'
33171 3' -58.9 NC_007497.1 + 37859 1.05 0.000676
Target:  5'- gACCACCUGAUCGAUCGCCCGCGCGAUc -3'
miRNA:   3'- -UGGUGGACUAGCUAGCGGGCGCGCUA- -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.