miRNA display CGI


Results 1 - 20 of 26 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
27442 3' -59.1 NC_005869.1 + 7600 0.66 0.39476
Target:  5'- uCGGgcuuCGAUGAgauCGUCCUGGccGCGCAg -3'
miRNA:   3'- cGCCacu-GCUGCU---GCAGGACC--CGCGU- -5'
27442 3' -59.1 NC_005869.1 + 13596 0.66 0.38575
Target:  5'- uUGGgGGCGAUGugGcggaagggguuuUCCUcGGGCGCu -3'
miRNA:   3'- cGCCaCUGCUGCugC------------AGGA-CCCGCGu -5'
27442 3' -59.1 NC_005869.1 + 8223 0.66 0.38575
Target:  5'- gGCGG-GGCGGCGG-GcCCUcGGGCGgGg -3'
miRNA:   3'- -CGCCaCUGCUGCUgCaGGA-CCCGCgU- -5'
27442 3' -59.1 NC_005869.1 + 19135 0.66 0.384857
Target:  5'- uGCGGcaucaUGACGGCGuCGccaUCCUGcggaauuccccguGGCGCGa -3'
miRNA:   3'- -CGCC-----ACUGCUGCuGC---AGGAC-------------CCGCGU- -5'
27442 3' -59.1 NC_005869.1 + 24003 0.67 0.379524
Target:  5'- gGgGGUgcugauuGugGACGACGcUCCUGucgcgacccccagccGGCGCGg -3'
miRNA:   3'- -CgCCA-------CugCUGCUGC-AGGAC---------------CCGCGU- -5'
27442 3' -59.1 NC_005869.1 + 26938 0.67 0.376877
Target:  5'- uGCGGUuccuGAuuuUGAgGGCGUCCUGGcCGCc -3'
miRNA:   3'- -CGCCA----CU---GCUgCUGCAGGACCcGCGu -5'
27442 3' -59.1 NC_005869.1 + 18607 0.67 0.351094
Target:  5'- gGCGGgcgcuUGGCGG-GACGUCCcgcgggauUGGcGCGCGg -3'
miRNA:   3'- -CGCC-----ACUGCUgCUGCAGG--------ACC-CGCGU- -5'
27442 3' -59.1 NC_005869.1 + 14961 0.67 0.342783
Target:  5'- -aGGUGAUgGugGAC-UCUggcGGGCGCAg -3'
miRNA:   3'- cgCCACUG-CugCUGcAGGa--CCCGCGU- -5'
27442 3' -59.1 NC_005869.1 + 26264 0.67 0.334615
Target:  5'- gGUGGUGGCGGCGGCGguggCUcGGCuGCu -3'
miRNA:   3'- -CGCCACUGCUGCUGCag--GAcCCG-CGu -5'
27442 3' -59.1 NC_005869.1 + 6662 0.68 0.326589
Target:  5'- gGCGGUccugccaGCGGCgGGCGgCCaGGGCGCGg -3'
miRNA:   3'- -CGCCAc------UGCUG-CUGCaGGaCCCGCGU- -5'
27442 3' -59.1 NC_005869.1 + 31497 0.68 0.325795
Target:  5'- uGCGGcacuggcugaagcUGGCGGCGGaggCCaucgGGGCGCAg -3'
miRNA:   3'- -CGCC-------------ACUGCUGCUgcaGGa---CCCGCGU- -5'
27442 3' -59.1 NC_005869.1 + 10315 0.68 0.318708
Target:  5'- gGCGGaGACGGaGGCGcgggUCCacuggUGGGCGCGg -3'
miRNA:   3'- -CGCCaCUGCUgCUGC----AGG-----ACCCGCGU- -5'
27442 3' -59.1 NC_005869.1 + 17816 0.68 0.31097
Target:  5'- cGCGGUGgguuccGCGugG-CG-CCUcGGCGCAg -3'
miRNA:   3'- -CGCCAC------UGCugCuGCaGGAcCCGCGU- -5'
27442 3' -59.1 NC_005869.1 + 11191 0.69 0.281452
Target:  5'- aUGGUGAaggaGGCGcuGCugagCCUGGGCGCGc -3'
miRNA:   3'- cGCCACUg---CUGC--UGca--GGACCCGCGU- -5'
27442 3' -59.1 NC_005869.1 + 28707 0.69 0.281452
Target:  5'- aCGGuUGGCucaucguaGAUGugGUCCUcGGCGCAg -3'
miRNA:   3'- cGCC-ACUG--------CUGCugCAGGAcCCGCGU- -5'
27442 3' -59.1 NC_005869.1 + 27980 0.69 0.267547
Target:  5'- cGCGGUGGCGGCG--GUCgCUGuaGCGCGu -3'
miRNA:   3'- -CGCCACUGCUGCugCAG-GACc-CGCGU- -5'
27442 3' -59.1 NC_005869.1 + 18636 0.69 0.254201
Target:  5'- uCGGagcgGAUGAUGAUcUCCUGGGCgGCGg -3'
miRNA:   3'- cGCCa---CUGCUGCUGcAGGACCCG-CGU- -5'
27442 3' -59.1 NC_005869.1 + 9456 0.69 0.247097
Target:  5'- uCGGUGACGGCG-CGgccgcccUCCcgGGGcCGCAg -3'
miRNA:   3'- cGCCACUGCUGCuGC-------AGGa-CCC-GCGU- -5'
27442 3' -59.1 NC_005869.1 + 24161 0.7 0.217433
Target:  5'- gGCGGUGACGugGGCGgag-GuGGCgGCGg -3'
miRNA:   3'- -CGCCACUGCugCUGCaggaC-CCG-CGU- -5'
27442 3' -59.1 NC_005869.1 + 28653 0.71 0.206227
Target:  5'- gGCGGUGGCaGCGGCG----GGGCGCGg -3'
miRNA:   3'- -CGCCACUGcUGCUGCaggaCCCGCGU- -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.