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
23856 3' -58.9 NC_005261.1 + 26324 1.06 0.001951
Target:  5'- aAGGGAGAUAGUGAGAGGGGCGCGGAAa -3'
miRNA:   3'- -UCCCUCUAUCACUCUCCCCGCGCCUU- -5'
23856 3' -58.9 NC_005261.1 + 11385 0.82 0.091569
Target:  5'- gAGGGAGggAGUGuGGGcGGGCGCGGGGa -3'
miRNA:   3'- -UCCCUCuaUCACuCUC-CCCGCGCCUU- -5'
23856 3' -58.9 NC_005261.1 + 97986 0.79 0.14283
Target:  5'- cGGGGAGAgugaAGUGGGAGGcGGCGgGGGc -3'
miRNA:   3'- -UCCCUCUa---UCACUCUCC-CCGCgCCUu -5'
23856 3' -58.9 NC_005261.1 + 84108 0.78 0.162323
Target:  5'- gGGGcGGGAUGGgGAGGGGGGCaGCGGGc -3'
miRNA:   3'- -UCC-CUCUAUCaCUCUCCCCG-CGCCUu -5'
23856 3' -58.9 NC_005261.1 + 503 0.77 0.193627
Target:  5'- gGGGGAGGgagAGgGGGGGaGGGCGCGGGc -3'
miRNA:   3'- -UCCCUCUa--UCaCUCUC-CCCGCGCCUu -5'
23856 3' -58.9 NC_005261.1 + 138174 0.77 0.193627
Target:  5'- gGGGGAGGgagAGgGGGGGaGGGCGCGGGc -3'
miRNA:   3'- -UCCCUCUa--UCaCUCUC-CCCGCGCCUu -5'
23856 3' -58.9 NC_005261.1 + 26876 0.76 0.2138
Target:  5'- gGGcGGGGGUGGgugGGGGGGGGCGgGGGc -3'
miRNA:   3'- -UC-CCUCUAUCa--CUCUCCCCGCgCCUu -5'
23856 3' -58.9 NC_005261.1 + 87861 0.76 0.241527
Target:  5'- aGGGGAGAaAGaGAGAGGuggcggagagaGGCGCGGAGa -3'
miRNA:   3'- -UCCCUCUaUCaCUCUCC-----------CCGCGCCUU- -5'
23856 3' -58.9 NC_005261.1 + 78461 0.75 0.252825
Target:  5'- gAGGGGGAUGGUGGGGGcgaggggggaaucGGGCgaaGCGGAc -3'
miRNA:   3'- -UCCCUCUAUCACUCUC-------------CCCG---CGCCUu -5'
23856 3' -58.9 NC_005261.1 + 11306 0.73 0.326869
Target:  5'- aGGGGAGGUGGgGAGgauggagauagguGGGGGUGgGGAGg -3'
miRNA:   3'- -UCCCUCUAUCaCUC-------------UCCCCGCgCCUU- -5'
23856 3' -58.9 NC_005261.1 + 69930 0.73 0.327611
Target:  5'- cAGGGGGuggGGUGGGAgccGGGGauaGCGGAGg -3'
miRNA:   3'- -UCCCUCua-UCACUCU---CCCCg--CGCCUU- -5'
23856 3' -58.9 NC_005261.1 + 11423 0.73 0.358307
Target:  5'- aGGaGGAGGcgGGcGGGGGGGGCgGCGGAAg -3'
miRNA:   3'- -UC-CCUCUa-UCaCUCUCCCCG-CGCCUU- -5'
23856 3' -58.9 NC_005261.1 + 32922 0.72 0.374393
Target:  5'- uGGGGGGcggcGGgcggGGGGGGGGCGgGGAGg -3'
miRNA:   3'- -UCCCUCua--UCa---CUCUCCCCGCgCCUU- -5'
23856 3' -58.9 NC_005261.1 + 90167 0.72 0.374393
Target:  5'- cGGGGAGGcGGaGGGGGGGGaCGgGGAGg -3'
miRNA:   3'- -UCCCUCUaUCaCUCUCCCC-GCgCCUU- -5'
23856 3' -58.9 NC_005261.1 + 5320 0.72 0.382617
Target:  5'- aGGaGGGGGUAG-GGGAGaGGCGCGGGu -3'
miRNA:   3'- -UC-CCUCUAUCaCUCUCcCCGCGCCUu -5'
23856 3' -58.9 NC_005261.1 + 57178 0.72 0.407138
Target:  5'- gAGGGAGuggGGUcggcgggaaggggGGGGGGGGCGCGcGGGu -3'
miRNA:   3'- -UCCCUCua-UCA-------------CUCUCCCCGCGC-CUU- -5'
23856 3' -58.9 NC_005261.1 + 11815 0.71 0.425497
Target:  5'- gAGGGGGAaAGaGAGuGGGGGCGgGGGc -3'
miRNA:   3'- -UCCCUCUaUCaCUC-UCCCCGCgCCUu -5'
23856 3' -58.9 NC_005261.1 + 7994 0.71 0.434411
Target:  5'- uGGGAGAggggGGaGAGGGGGGCuugagcgaGCGGGu -3'
miRNA:   3'- uCCCUCUa---UCaCUCUCCCCG--------CGCCUu -5'
23856 3' -58.9 NC_005261.1 + 5379 0.71 0.452558
Target:  5'- gGGGGAGggAGggaGGGAGGGagagcgagaGCGCGGGc -3'
miRNA:   3'- -UCCCUCuaUCa--CUCUCCC---------CGCGCCUu -5'
23856 3' -58.9 NC_005261.1 + 26815 0.71 0.461786
Target:  5'- aGGGGGGAaccugccugcucUGG-GAGGGGGGCgGUGGGc -3'
miRNA:   3'- -UCCCUCU------------AUCaCUCUCCCCG-CGCCUu -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.