miRNA display CGI


Results 1 - 20 of 35 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
26552 3' -53.6 NC_005357.1 + 33956 0.66 0.752961
Target:  5'- cGCGUcggcUGCgGCAUCGCag-GCcACCUCGa -3'
miRNA:   3'- -CGCAa---ACG-CGUAGUGcgaCG-UGGAGC- -5'
26552 3' -53.6 NC_005357.1 + 20109 0.66 0.752961
Target:  5'- cGCGUUcgGCacggccagcaGCAUCGUGCUGCccgACUUCGa -3'
miRNA:   3'- -CGCAAa-CG----------CGUAGUGCGACG---UGGAGC- -5'
26552 3' -53.6 NC_005357.1 + 9517 0.66 0.74223
Target:  5'- gGCGaacagUG-GCAUCAUGCUGCgGCCcuguUCGg -3'
miRNA:   3'- -CGCaa---ACgCGUAGUGCGACG-UGG----AGC- -5'
26552 3' -53.6 NC_005357.1 + 38720 0.66 0.74223
Target:  5'- aGCGgaUGCGCcgCAUgggGCaGCGCgUCGc -3'
miRNA:   3'- -CGCaaACGCGuaGUG---CGaCGUGgAGC- -5'
26552 3' -53.6 NC_005357.1 + 27752 0.66 0.74223
Target:  5'- -----cGCGCAaCuCGCUGC-CCUCGu -3'
miRNA:   3'- cgcaaaCGCGUaGuGCGACGuGGAGC- -5'
26552 3' -53.6 NC_005357.1 + 14770 0.66 0.738987
Target:  5'- aGCGUgucggUGUcgaucuGCuUCACGaugucgcuggaaacCUGCACCUCGg -3'
miRNA:   3'- -CGCAa----ACG------CGuAGUGC--------------GACGUGGAGC- -5'
26552 3' -53.6 NC_005357.1 + 11081 0.66 0.720427
Target:  5'- cGUGUccGgGUcgCGCGCgaGCACCUUGu -3'
miRNA:   3'- -CGCAaaCgCGuaGUGCGa-CGUGGAGC- -5'
26552 3' -53.6 NC_005357.1 + 37293 0.66 0.69825
Target:  5'- cCGccUGCGCggCACGUUGCAgUUCa -3'
miRNA:   3'- cGCaaACGCGuaGUGCGACGUgGAGc -5'
26552 3' -53.6 NC_005357.1 + 12549 0.67 0.687053
Target:  5'- gGCGUcggugaauuucUUGCcgGCcUCGCGCUGCGCggCGa -3'
miRNA:   3'- -CGCA-----------AACG--CGuAGUGCGACGUGgaGC- -5'
26552 3' -53.6 NC_005357.1 + 2947 0.67 0.6758
Target:  5'- ------cCGCGUCGCGCgGCACgUCGa -3'
miRNA:   3'- cgcaaacGCGUAGUGCGaCGUGgAGC- -5'
26552 3' -53.6 NC_005357.1 + 39858 0.67 0.6758
Target:  5'- aGCGc--GCGCA-CGCGCUGgGCCgugUCGc -3'
miRNA:   3'- -CGCaaaCGCGUaGUGCGACgUGG---AGC- -5'
26552 3' -53.6 NC_005357.1 + 8342 0.67 0.664503
Target:  5'- cGCGUgcGUGC-UCAUGCcaGUACCUCc -3'
miRNA:   3'- -CGCAaaCGCGuAGUGCGa-CGUGGAGc -5'
26552 3' -53.6 NC_005357.1 + 1667 0.67 0.664503
Target:  5'- cUGUUUGCGCGUgAUGCUGCcgcGCagguagUCGa -3'
miRNA:   3'- cGCAAACGCGUAgUGCGACG---UGg-----AGC- -5'
26552 3' -53.6 NC_005357.1 + 26844 0.67 0.653174
Target:  5'- gGCGcg-GUGCAUC-CGCaGCGCgUCGu -3'
miRNA:   3'- -CGCaaaCGCGUAGuGCGaCGUGgAGC- -5'
26552 3' -53.6 NC_005357.1 + 27837 0.67 0.641824
Target:  5'- cGCGgugGCGCcggcCGCGCcGCugCUCa -3'
miRNA:   3'- -CGCaaaCGCGua--GUGCGaCGugGAGc -5'
26552 3' -53.6 NC_005357.1 + 12608 0.68 0.607761
Target:  5'- --aUUUGCGCAUgGCGCcGaCGCgCUCGg -3'
miRNA:   3'- cgcAAACGCGUAgUGCGaC-GUG-GAGC- -5'
26552 3' -53.6 NC_005357.1 + 30302 0.68 0.585146
Target:  5'- cGCGUg-GCGCGUCGCGCca-ACCUg- -3'
miRNA:   3'- -CGCAaaCGCGUAGUGCGacgUGGAgc -5'
26552 3' -53.6 NC_005357.1 + 6010 0.69 0.562699
Target:  5'- aGCGUgcGUGCcguUCugGauagGCACCUCGc -3'
miRNA:   3'- -CGCAaaCGCGu--AGugCga--CGUGGAGC- -5'
26552 3' -53.6 NC_005357.1 + 24802 0.69 0.518582
Target:  5'- cGCGUUgaaGUcgccguacaGCAUCugGCUGCGCaauggCUCGg -3'
miRNA:   3'- -CGCAAa--CG---------CGUAGugCGACGUG-----GAGC- -5'
26552 3' -53.6 NC_005357.1 + 35262 0.69 0.518582
Target:  5'- gGCGUcaGCGCGUCGgGCcUGgGCUUCa -3'
miRNA:   3'- -CGCAaaCGCGUAGUgCG-ACgUGGAGc -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.