miRNA display CGI


Results 1 - 20 of 64 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
25040 3' -57.2 NC_005336.1 + 134436 0.67 0.772193
Target:  5'- gGAcGCUGCuGCUggcgguugccgCAGUGaCGGUGCUCGg -3'
miRNA:   3'- -CUcUGACG-CGAa----------GUCGC-GCCACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 134306 0.67 0.78161
Target:  5'- -cGACUGCGCgu-GGCGCuGGUGaaCAg -3'
miRNA:   3'- cuCUGACGCGaagUCGCG-CCACgaGU- -5'
25040 3' -57.2 NC_005336.1 + 134128 0.68 0.723378
Target:  5'- aGAGACgcuggcgGCGCUccCGGcCGCGGacagGCUCGc -3'
miRNA:   3'- -CUCUGa------CGCGAa-GUC-GCGCCa---CGAGU- -5'
25040 3' -57.2 NC_005336.1 + 133483 0.68 0.703223
Target:  5'- -cGGCuggUGCGCaUgGGCGCGGaGCUCGg -3'
miRNA:   3'- cuCUG---ACGCGaAgUCGCGCCaCGAGU- -5'
25040 3' -57.2 NC_005336.1 + 133435 0.68 0.693049
Target:  5'- cAGACcGCGCUgcacCGcGCgGCGGUGUUCAg -3'
miRNA:   3'- cUCUGaCGCGAa---GU-CG-CGCCACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 133359 0.68 0.703223
Target:  5'- cGGGcGCUGCGCUcgCGGCGuCGuggaauucGUGCUCGa -3'
miRNA:   3'- -CUC-UGACGCGAa-GUCGC-GC--------CACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 130534 1.08 0.001985
Target:  5'- aGAGACUGCGCUUCAGCGCGGUGCUCAc -3'
miRNA:   3'- -CUCUGACGCGAAGUCGCGCCACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 130307 0.66 0.800024
Target:  5'- cGAGGCUGCGCUcuUCcucgaggagacgGGCGCgagcccGGUGCcCGc -3'
miRNA:   3'- -CUCUGACGCGA--AG------------UCGCG------CCACGaGU- -5'
25040 3' -57.2 NC_005336.1 + 129815 0.67 0.78161
Target:  5'- -cGACUGCGCga-AGCugGUGGUGCg-- -3'
miRNA:   3'- cuCUGACGCGaagUCG--CGCCACGagu -5'
25040 3' -57.2 NC_005336.1 + 129741 0.66 0.817816
Target:  5'- --uGCUGCGCUUCGGCGCagacGUGaaCGc -3'
miRNA:   3'- cucUGACGCGAAGUCGCGc---CACgaGU- -5'
25040 3' -57.2 NC_005336.1 + 129538 0.67 0.78161
Target:  5'- aGGACUGCggccgcgccgaGC-UCGccucCGCGGUGCUCAa -3'
miRNA:   3'- cUCUGACG-----------CGaAGUc---GCGCCACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 125709 0.69 0.620879
Target:  5'- -cGGCgGCGCUcuucgUCAGCGgagaccaGGUGCUCGa -3'
miRNA:   3'- cuCUGaCGCGA-----AGUCGCg------CCACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 124663 0.82 0.123249
Target:  5'- -cGGCUGCGCUggaaAGCGCGGUGCUg- -3'
miRNA:   3'- cuCUGACGCGAag--UCGCGCCACGAgu -5'
25040 3' -57.2 NC_005336.1 + 124039 0.67 0.78161
Target:  5'- -cGACUGuCGCgucgcgCGGcCGCGGcGCUCGc -3'
miRNA:   3'- cuCUGAC-GCGaa----GUC-GCGCCaCGAGU- -5'
25040 3' -57.2 NC_005336.1 + 122748 0.73 0.415581
Target:  5'- uGAGGCUGCGCUcgcCGGCcuGCGGcUGUUCGc -3'
miRNA:   3'- -CUCUGACGCGAa--GUCG--CGCC-ACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 118167 0.67 0.743212
Target:  5'- -cGGCgagGCGCUUgaCGGCGCGGaaCUCGg -3'
miRNA:   3'- cuCUGa--CGCGAA--GUCGCGCCacGAGU- -5'
25040 3' -57.2 NC_005336.1 + 112058 0.68 0.73334
Target:  5'- --aGCUGcCGCUUgCAGCGCucgaggucgcGGUGCUCc -3'
miRNA:   3'- cucUGAC-GCGAA-GUCGCG----------CCACGAGu -5'
25040 3' -57.2 NC_005336.1 + 103503 0.74 0.372893
Target:  5'- cGAGG-UGCGCaucaacUUCGGCGCGGgccgGCUCAu -3'
miRNA:   3'- -CUCUgACGCG------AAGUCGCGCCa---CGAGU- -5'
25040 3' -57.2 NC_005336.1 + 102121 0.7 0.589912
Target:  5'- uGGACUuCGCga-AGCGCGG-GCUCAu -3'
miRNA:   3'- cUCUGAcGCGaagUCGCGCCaCGAGU- -5'
25040 3' -57.2 NC_005336.1 + 100418 0.66 0.826458
Target:  5'- cGGGCgGCGCcgCAcGCGCG-UGCUCGc -3'
miRNA:   3'- cUCUGaCGCGaaGU-CGCGCcACGAGU- -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.