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
22971 5' -59.2 NC_005137.2 + 83116 0.66 0.768184
Target:  5'- -----aUCAAUGGCACGCCCaACGCUa -3'
miRNA:   3'- gaggccGGUUAUCGUGCGGG-UGCGGg -5'
22971 5' -59.2 NC_005137.2 + 45014 0.66 0.765387
Target:  5'- -cUCGGCC---GGCGCGgCCACaaauaucuuuacggGCCCg -3'
miRNA:   3'- gaGGCCGGuuaUCGUGCgGGUG--------------CGGG- -5'
22971 5' -59.2 NC_005137.2 + 2483 0.66 0.758821
Target:  5'- --aCGGCCAu--GCACGCCUccacgaGCGCg- -3'
miRNA:   3'- gagGCCGGUuauCGUGCGGG------UGCGgg -5'
22971 5' -59.2 NC_005137.2 + 50074 0.66 0.758821
Target:  5'- -aUUGGCCAuugacGCGCGCCucCACGgCCg -3'
miRNA:   3'- gaGGCCGGUuau--CGUGCGG--GUGCgGG- -5'
22971 5' -59.2 NC_005137.2 + 78079 0.66 0.758821
Target:  5'- -aCCGGCCAcuuguuucauucGUuGUACGCgUACguGCCCa -3'
miRNA:   3'- gaGGCCGGU------------UAuCGUGCGgGUG--CGGG- -5'
22971 5' -59.2 NC_005137.2 + 112940 0.66 0.74935
Target:  5'- --aCGGCgucUGGUugGacaCCACGCCCg -3'
miRNA:   3'- gagGCCGguuAUCGugCg--GGUGCGGG- -5'
22971 5' -59.2 NC_005137.2 + 21380 0.66 0.730114
Target:  5'- --gCGGCCcgcAGCGuCGCCCACGUa- -3'
miRNA:   3'- gagGCCGGuuaUCGU-GCGGGUGCGgg -5'
22971 5' -59.2 NC_005137.2 + 110555 0.66 0.720368
Target:  5'- -gCCcGCCGAU-GUGCGCCCGCaCCUg -3'
miRNA:   3'- gaGGcCGGUUAuCGUGCGGGUGcGGG- -5'
22971 5' -59.2 NC_005137.2 + 73460 0.66 0.720368
Target:  5'- --aCGGCCAuaguUAGUggGCGCCaccaaacCGCCCg -3'
miRNA:   3'- gagGCCGGUu---AUCG--UGCGGgu-----GCGGG- -5'
22971 5' -59.2 NC_005137.2 + 100249 0.66 0.716448
Target:  5'- aUCCGGgCGccgcaacgcacgGGCGCGCgucgcggcauUCACGCCCa -3'
miRNA:   3'- gAGGCCgGUua----------UCGUGCG----------GGUGCGGG- -5'
22971 5' -59.2 NC_005137.2 + 93670 0.67 0.710548
Target:  5'- -gCCGGCCGcGUAGaUGCGCaaCAgGCCCa -3'
miRNA:   3'- gaGGCCGGU-UAUC-GUGCGg-GUgCGGG- -5'
22971 5' -59.2 NC_005137.2 + 93464 0.67 0.710548
Target:  5'- -aCgGGCaCGGU-GCGCGCCaGCGCCg -3'
miRNA:   3'- gaGgCCG-GUUAuCGUGCGGgUGCGGg -5'
22971 5' -59.2 NC_005137.2 + 112681 0.67 0.704625
Target:  5'- gUCCgGGUCGggacgcacguuaaacGcgGGCACGUcguCCACGCCCa -3'
miRNA:   3'- gAGG-CCGGU---------------Ua-UCGUGCG---GGUGCGGG- -5'
22971 5' -59.2 NC_005137.2 + 127518 0.67 0.700664
Target:  5'- uCUUCaaaGCaGAU-GCGCGCCCAUGCCUg -3'
miRNA:   3'- -GAGGc--CGgUUAuCGUGCGGGUGCGGG- -5'
22971 5' -59.2 NC_005137.2 + 29356 0.67 0.690723
Target:  5'- uUuuGGCCAAUuuuuaAGCAUaaCCugGCCUg -3'
miRNA:   3'- gAggCCGGUUA-----UCGUGcgGGugCGGG- -5'
22971 5' -59.2 NC_005137.2 + 96046 0.67 0.690723
Target:  5'- --aCGGUCAcc-GCgACGCaCCAUGCCCg -3'
miRNA:   3'- gagGCCGGUuauCG-UGCG-GGUGCGGG- -5'
22971 5' -59.2 NC_005137.2 + 95656 0.67 0.680735
Target:  5'- -aCCGGCCAcgucAGCgauGCGCCCgugcgGCGCgCa -3'
miRNA:   3'- gaGGCCGGUua--UCG---UGCGGG-----UGCGgG- -5'
22971 5' -59.2 NC_005137.2 + 1136 0.67 0.680735
Target:  5'- -aUCGGCC--UGGUuuuccaaGCUCGCGCCCg -3'
miRNA:   3'- gaGGCCGGuuAUCGug-----CGGGUGCGGG- -5'
22971 5' -59.2 NC_005137.2 + 55416 0.67 0.670708
Target:  5'- gCUCCacGCgCAc-GGCGcCGCCCGCGUCCg -3'
miRNA:   3'- -GAGGc-CG-GUuaUCGU-GCGGGUGCGGG- -5'
22971 5' -59.2 NC_005137.2 + 51851 0.67 0.670708
Target:  5'- gUCUuGuCCAuguGCACGCCUuuuACGCCCg -3'
miRNA:   3'- gAGGcC-GGUuauCGUGCGGG---UGCGGG- -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.