miRNA display CGI


Results 1 - 20 of 55 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
13996 3' -50.5 NC_003521.1 + 100099 0.66 0.999553
Target:  5'- --aGCUCGUCGuGCGACagcaGGAugCGa -3'
miRNA:   3'- gcaCGAGUAGC-UGUUGaag-CCUugGC- -5'
13996 3' -50.5 NC_003521.1 + 239842 0.66 0.999553
Target:  5'- cCGUGCUCGUUGuCggUggcgCGGaAGCCc -3'
miRNA:   3'- -GCACGAGUAGCuGuuGaa--GCC-UUGGc -5'
13996 3' -50.5 NC_003521.1 + 224108 0.66 0.999553
Target:  5'- uCGUGCgagaguuccUCGUCGACGAUguccaggcCGuGGGCCGa -3'
miRNA:   3'- -GCACG---------AGUAGCUGUUGaa------GC-CUUGGC- -5'
13996 3' -50.5 NC_003521.1 + 105973 0.66 0.999553
Target:  5'- aCGUGCUCAUC-ACGGac-CaGAGCCGc -3'
miRNA:   3'- -GCACGAGUAGcUGUUgaaGcCUUGGC- -5'
13996 3' -50.5 NC_003521.1 + 51744 0.66 0.999493
Target:  5'- gGUGCUCaGcaugcgauacaccugUCGGCGACUUUGGAagGCUu -3'
miRNA:   3'- gCACGAG-U---------------AGCUGUUGAAGCCU--UGGc -5'
13996 3' -50.5 NC_003521.1 + 152172 0.66 0.999323
Target:  5'- -aUGCUCAgcaUCGGCGACU---GGACCGu -3'
miRNA:   3'- gcACGAGU---AGCUGUUGAagcCUUGGC- -5'
13996 3' -50.5 NC_003521.1 + 193152 0.66 0.999323
Target:  5'- cCGUG-UCGUCGGCGcacaGCaUCucaGGAGCCGg -3'
miRNA:   3'- -GCACgAGUAGCUGU----UGaAG---CCUUGGC- -5'
13996 3' -50.5 NC_003521.1 + 124086 0.66 0.999323
Target:  5'- aCGUGUUUgaagggCGcCGACUcCGGGACCGc -3'
miRNA:   3'- -GCACGAGua----GCuGUUGAaGCCUUGGC- -5'
13996 3' -50.5 NC_003521.1 + 16220 0.66 0.999323
Target:  5'- --cGUaCGUCGACAGguacuacgacggUUUCGGAGCCa -3'
miRNA:   3'- gcaCGaGUAGCUGUU------------GAAGCCUUGGc -5'
13996 3' -50.5 NC_003521.1 + 52205 0.66 0.999173
Target:  5'- --aGCUCAUCaGACAguACg--GGGGCCGg -3'
miRNA:   3'- gcaCGAGUAG-CUGU--UGaagCCUUGGC- -5'
13996 3' -50.5 NC_003521.1 + 150777 0.66 0.999173
Target:  5'- --cGCUCGcgCGACGACgggCGGGcgcgaGCCGc -3'
miRNA:   3'- gcaCGAGUa-GCUGUUGaa-GCCU-----UGGC- -5'
13996 3' -50.5 NC_003521.1 + 122727 0.66 0.999173
Target:  5'- uCGUGgUCGUgGGCGACggCGccGCCGa -3'
miRNA:   3'- -GCACgAGUAgCUGUUGaaGCcuUGGC- -5'
13996 3' -50.5 NC_003521.1 + 5289 0.66 0.999173
Target:  5'- aCGUGCUCGaaaccCGGCAugUuucgCGGGGgCGg -3'
miRNA:   3'- -GCACGAGUa----GCUGUugAa---GCCUUgGC- -5'
13996 3' -50.5 NC_003521.1 + 136769 0.67 0.998258
Target:  5'- aCGUGCUgGcgcaGACGGCgUCGGAGCa- -3'
miRNA:   3'- -GCACGAgUag--CUGUUGaAGCCUUGgc -5'
13996 3' -50.5 NC_003521.1 + 171135 0.67 0.998258
Target:  5'- --cGCUCAacUCGAUguuCUauuaUCGGGACCGa -3'
miRNA:   3'- gcaCGAGU--AGCUGuu-GA----AGCCUUGGC- -5'
13996 3' -50.5 NC_003521.1 + 173645 0.67 0.997927
Target:  5'- gGUGUUgGUUcgGGCGGCUgcgCGGGACCc -3'
miRNA:   3'- gCACGAgUAG--CUGUUGAa--GCCUUGGc -5'
13996 3' -50.5 NC_003521.1 + 61412 0.68 0.997107
Target:  5'- -cUGCUCAgCGACAGCaugCGGcACCu -3'
miRNA:   3'- gcACGAGUaGCUGUUGaa-GCCuUGGc -5'
13996 3' -50.5 NC_003521.1 + 15298 0.68 0.997107
Target:  5'- aCGcGUUCGUCGACGcGCgaCGGcGCCGa -3'
miRNA:   3'- -GCaCGAGUAGCUGU-UGaaGCCuUGGC- -5'
13996 3' -50.5 NC_003521.1 + 216047 0.68 0.997107
Target:  5'- uCG-GCUCAUCGugA-CgaCGGAugCGg -3'
miRNA:   3'- -GCaCGAGUAGCugUuGaaGCCUugGC- -5'
13996 3' -50.5 NC_003521.1 + 104990 0.68 0.996605
Target:  5'- gGUGCUCAUgGGCAcgggaGCgUUCGucGCCGc -3'
miRNA:   3'- gCACGAGUAgCUGU-----UG-AAGCcuUGGC- -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.