miRNA display CGI


Results 1 - 20 of 37 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
26276 3' -64.4 NC_005345.2 + 31591 0.69 0.170815
Target:  5'- -uGCCGGGcCCugCUCGGCGc-GGCCCGc -3'
miRNA:   3'- guCGGCUCaGG--GAGCCGCacCCGGGC- -5'
26276 3' -64.4 NC_005345.2 + 26130 0.66 0.276392
Target:  5'- uGGUCGAGUUcgcccggaugcccgaCCUCGGCGaGGaccccgaGCCCGa -3'
miRNA:   3'- gUCGGCUCAG---------------GGAGCCGCaCC-------CGGGC- -5'
26276 3' -64.4 NC_005345.2 + 17807 0.66 0.287844
Target:  5'- gAGCCGGaucaUCCCUgcCGGCGUGccccuucccGCCCGg -3'
miRNA:   3'- gUCGGCUc---AGGGA--GCCGCACc--------CGGGC- -5'
26276 3' -64.4 NC_005345.2 + 47925 0.66 0.287844
Target:  5'- aAGCCauGGGaCCCguaccgcgCGGCGUGG-CCCGc -3'
miRNA:   3'- gUCGG--CUCaGGGa-------GCCGCACCcGGGC- -5'
26276 3' -64.4 NC_005345.2 + 13158 0.77 0.045576
Target:  5'- -cGCCGAGUCCgCUCGGCGgaagGacaaccgaugaccGGCCCGa -3'
miRNA:   3'- guCGGCUCAGG-GAGCCGCa---C-------------CCGGGC- -5'
26276 3' -64.4 NC_005345.2 + 5429 0.76 0.046983
Target:  5'- -cGCCGAGUUCUUCGGCG-GcGCCCGg -3'
miRNA:   3'- guCGGCUCAGGGAGCCGCaCcCGGGC- -5'
26276 3' -64.4 NC_005345.2 + 2013 0.74 0.074918
Target:  5'- gAGCaGGcGUUCCUCGGCGUccucgucgagcGGGCCCGg -3'
miRNA:   3'- gUCGgCU-CAGGGAGCCGCA-----------CCCGGGC- -5'
26276 3' -64.4 NC_005345.2 + 38518 0.73 0.088161
Target:  5'- -uGgCGAG-CCC-CGGgGUGGGCCCGu -3'
miRNA:   3'- guCgGCUCaGGGaGCCgCACCCGGGC- -5'
26276 3' -64.4 NC_005345.2 + 7335 0.71 0.118398
Target:  5'- -cGCCGAGUCgCacgCGGUGUGG-CCCGc -3'
miRNA:   3'- guCGGCUCAGgGa--GCCGCACCcGGGC- -5'
26276 3' -64.4 NC_005345.2 + 20163 0.66 0.264028
Target:  5'- aGGCaCGAGcCCCgccgcauuccgaugCGGCG-GGGCCUu -3'
miRNA:   3'- gUCG-GCUCaGGGa-------------GCCGCaCCCGGGc -5'
26276 3' -64.4 NC_005345.2 + 30017 0.67 0.248447
Target:  5'- cCGGCCGAgGUCgCCgagCGgaucggcgcccacGCGUGGGCCg- -3'
miRNA:   3'- -GUCGGCU-CAG-GGa--GC-------------CGCACCCGGgc -5'
26276 3' -64.4 NC_005345.2 + 43678 0.67 0.243027
Target:  5'- -cGCCGGGUggcugaucagCCUCGccGCGUGGGCCgGc -3'
miRNA:   3'- guCGGCUCAg---------GGAGC--CGCACCCGGgC- -5'
26276 3' -64.4 NC_005345.2 + 26763 0.68 0.189232
Target:  5'- ---aCGAGUCCC-CGGCGcGGGUgCGg -3'
miRNA:   3'- gucgGCUCAGGGaGCCGCaCCCGgGC- -5'
26276 3' -64.4 NC_005345.2 + 16878 0.66 0.255207
Target:  5'- aCGGCCGAG-CgUggCGGCGgaaGGcGCCCGu -3'
miRNA:   3'- -GUCGGCUCaGgGa-GCCGCa--CC-CGGGC- -5'
26276 3' -64.4 NC_005345.2 + 39822 0.68 0.189232
Target:  5'- -uGCCGAccaCCCUCGGCaucgcGGGCUCGg -3'
miRNA:   3'- guCGGCUca-GGGAGCCGca---CCCGGGC- -5'
26276 3' -64.4 NC_005345.2 + 26332 0.67 0.237121
Target:  5'- uCAGCCGuucgugccGUCgCCguccgCGGUGUGGGCgUCGg -3'
miRNA:   3'- -GUCGGCu-------CAG-GGa----GCCGCACCCG-GGC- -5'
26276 3' -64.4 NC_005345.2 + 29784 0.66 0.255207
Target:  5'- -cGCCGAGUCCCUCGaagacgacuacGCGcucGCCCc -3'
miRNA:   3'- guCGGCUCAGGGAGC-----------CGCaccCGGGc -5'
26276 3' -64.4 NC_005345.2 + 27853 0.66 0.281063
Target:  5'- uGGCCGA--UCCUCGGCG-GcGCCCc -3'
miRNA:   3'- gUCGGCUcaGGGAGCCGCaCcCGGGc -5'
26276 3' -64.4 NC_005345.2 + 43840 0.68 0.199081
Target:  5'- -cGCCGGcGUCaugCUCGGa-UGGGCCCGc -3'
miRNA:   3'- guCGGCU-CAGg--GAGCCgcACCCGGGC- -5'
26276 3' -64.4 NC_005345.2 + 35688 0.68 0.214689
Target:  5'- -cGCCGGGUUCgUCGGUcUGGGCaagcugCCGg -3'
miRNA:   3'- guCGGCUCAGGgAGCCGcACCCG------GGC- -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.