miRNA display CGI


Results 1 - 20 of 34 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
18530 3' -57.6 NC_004681.1 + 5340 0.66 0.666388
Target:  5'- cUGCAU-GCCcaCAGCGG--GCGCGUAg -3'
miRNA:   3'- aGCGUAuCGGa-GUCGCCauCGCGCGU- -5'
18530 3' -57.6 NC_004681.1 + 58879 0.66 0.655695
Target:  5'- gCGCGc-GCCUCGaCGGU-GCGCGUg -3'
miRNA:   3'- aGCGUauCGGAGUcGCCAuCGCGCGu -5'
18530 3' -57.6 NC_004681.1 + 14589 0.66 0.649268
Target:  5'- -aGCAccGGCCaccagcgcgcccugcUCGGCGGaggcGGCGCGCGc -3'
miRNA:   3'- agCGUa-UCGG---------------AGUCGCCa---UCGCGCGU- -5'
18530 3' -57.6 NC_004681.1 + 47169 0.66 0.634256
Target:  5'- uUCGCGgcGGCgUUccuGGCGGgguGCGCGCu -3'
miRNA:   3'- -AGCGUa-UCGgAG---UCGCCau-CGCGCGu -5'
18530 3' -57.6 NC_004681.1 + 3506 0.66 0.634256
Target:  5'- gCGCGUGG-CUCGcGCGGgcGC-CGCGg -3'
miRNA:   3'- aGCGUAUCgGAGU-CGCCauCGcGCGU- -5'
18530 3' -57.6 NC_004681.1 + 18316 0.66 0.631038
Target:  5'- -aGC--AGCCUUccgguucguccgguGGCGGUGGCGgGCu -3'
miRNA:   3'- agCGuaUCGGAG--------------UCGCCAUCGCgCGu -5'
18530 3' -57.6 NC_004681.1 + 62381 0.66 0.623529
Target:  5'- cCGCGUcgaacuCCUCGGCGGUgaucuugcccccGGCGCGg- -3'
miRNA:   3'- aGCGUAuc----GGAGUCGCCA------------UCGCGCgu -5'
18530 3' -57.6 NC_004681.1 + 57427 0.67 0.612809
Target:  5'- aCGCG-AGCUUgCGGCGGUAGUGgacugaGCAc -3'
miRNA:   3'- aGCGUaUCGGA-GUCGCCAUCGCg-----CGU- -5'
18530 3' -57.6 NC_004681.1 + 12485 0.67 0.602105
Target:  5'- -aGCGUcGCCgCGGUGGUGGUGC-CAc -3'
miRNA:   3'- agCGUAuCGGaGUCGCCAUCGCGcGU- -5'
18530 3' -57.6 NC_004681.1 + 61179 0.67 0.602105
Target:  5'- cCGC--AGCUcggggUCGGCGGUcAGCGUGCc -3'
miRNA:   3'- aGCGuaUCGG-----AGUCGCCA-UCGCGCGu -5'
18530 3' -57.6 NC_004681.1 + 17410 0.67 0.602105
Target:  5'- gCGUGUAGCgUCccGCGGgcacGCGCGCc -3'
miRNA:   3'- aGCGUAUCGgAGu-CGCCau--CGCGCGu -5'
18530 3' -57.6 NC_004681.1 + 32221 0.67 0.591426
Target:  5'- -aGCA-GGCCaucgCAGCGGcAGCGCGg- -3'
miRNA:   3'- agCGUaUCGGa---GUCGCCaUCGCGCgu -5'
18530 3' -57.6 NC_004681.1 + 60364 0.67 0.58078
Target:  5'- gCGCGUAaGCCUCucgugGGCacGGUGGCG-GCGa -3'
miRNA:   3'- aGCGUAU-CGGAG-----UCG--CCAUCGCgCGU- -5'
18530 3' -57.6 NC_004681.1 + 61766 0.67 0.570173
Target:  5'- -gGCGgcGGCCUCcgcGGCGGcggcuucuGCGCGCAg -3'
miRNA:   3'- agCGUa-UCGGAG---UCGCCau------CGCGCGU- -5'
18530 3' -57.6 NC_004681.1 + 41669 0.67 0.559615
Target:  5'- gCGCu--GCCUgCGG-GGUGGCGCuGCAu -3'
miRNA:   3'- aGCGuauCGGA-GUCgCCAUCGCG-CGU- -5'
18530 3' -57.6 NC_004681.1 + 13234 0.67 0.559615
Target:  5'- cCGCcguGCCacgaagGGCGGUGGCGgGCAg -3'
miRNA:   3'- aGCGuauCGGag----UCGCCAUCGCgCGU- -5'
18530 3' -57.6 NC_004681.1 + 67775 0.67 0.559615
Target:  5'- aUGCcUAGCCUCGGCcGUAGCcuccacccggGCGUg -3'
miRNA:   3'- aGCGuAUCGGAGUCGcCAUCG----------CGCGu -5'
18530 3' -57.6 NC_004681.1 + 67817 0.68 0.549112
Target:  5'- -aGguUGGCCau-GCGGUAGCGCcaGCGg -3'
miRNA:   3'- agCguAUCGGaguCGCCAUCGCG--CGU- -5'
18530 3' -57.6 NC_004681.1 + 14331 0.68 0.518001
Target:  5'- cCGCGUcAG-CUCAGCcuGGUAGCgGCGUAg -3'
miRNA:   3'- aGCGUA-UCgGAGUCG--CCAUCG-CGCGU- -5'
18530 3' -57.6 NC_004681.1 + 48323 0.68 0.507785
Target:  5'- -gGCG-AGCCUCGGCGagggccagcuuGUAgGCGCGCu -3'
miRNA:   3'- agCGUaUCGGAGUCGC-----------CAU-CGCGCGu -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.