miRNA display CGI


Results 1 - 20 of 68 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
29897 3' -65 NC_006273.1 + 87869 1.09 0.000776
Target:  5'- cAUCGCCUCCCGAGCGAGCGGGCCGCCg -3'
miRNA:   3'- -UAGCGGAGGGCUCGCUCGCCCGGCGG- -5'
29897 3' -65 NC_006273.1 + 197472 0.68 0.513466
Target:  5'- cUCGCCUCCCGcucacaacgcguGCGAgaccugcGCGaGGCCcggcGCCa -3'
miRNA:   3'- uAGCGGAGGGCu-----------CGCU-------CGC-CCGG----CGG- -5'
29897 3' -65 NC_006273.1 + 141175 0.67 0.543317
Target:  5'- -gCGCCggg-GGGCG-GCGGGCaCGCCg -3'
miRNA:   3'- uaGCGGagggCUCGCuCGCCCG-GCGG- -5'
29897 3' -65 NC_006273.1 + 90927 0.66 0.636397
Target:  5'- -aCGCCggcgcgcgagCCCGuguaguGCGAGCc-GCCGCCa -3'
miRNA:   3'- uaGCGGa---------GGGCu-----CGCUCGccCGGCGG- -5'
29897 3' -65 NC_006273.1 + 220355 0.72 0.318534
Target:  5'- -aCGCC-CCgGGGCGuGCGGGCaaaaGCUa -3'
miRNA:   3'- uaGCGGaGGgCUCGCuCGCCCGg---CGG- -5'
29897 3' -65 NC_006273.1 + 13570 0.7 0.401331
Target:  5'- -aCGCCgggugcucacccgCCGGGCGGccCGGGCCGCCg -3'
miRNA:   3'- uaGCGGag-----------GGCUCGCUc-GCCCGGCGG- -5'
29897 3' -65 NC_006273.1 + 133799 0.69 0.438402
Target:  5'- cGUCGUuaucUUCCCuGAGCGAGCGcgaacGCCGCg -3'
miRNA:   3'- -UAGCG----GAGGG-CUCGCUCGCc----CGGCGg -5'
29897 3' -65 NC_006273.1 + 190342 0.69 0.463608
Target:  5'- --aGUauaggUCCGuGCGAGCaGGCCGCCg -3'
miRNA:   3'- uagCGga---GGGCuCGCUCGcCCGGCGG- -5'
29897 3' -65 NC_006273.1 + 170793 0.68 0.480826
Target:  5'- cUCGCgCUCCaaAGCGAGCGauGUCGCCc -3'
miRNA:   3'- uAGCG-GAGGgcUCGCUCGCc-CGGCGG- -5'
29897 3' -65 NC_006273.1 + 189512 0.68 0.507218
Target:  5'- -cCGCCgCgCUGuGUGAGaguuccaGGGCCGCCg -3'
miRNA:   3'- uaGCGGaG-GGCuCGCUCg------CCCGGCGG- -5'
29897 3' -65 NC_006273.1 + 1046 0.68 0.495703
Target:  5'- -aCGCCgggccacggcguccaCCGGGUaGAaccccGCGGGCCGCCg -3'
miRNA:   3'- uaGCGGag-------------GGCUCG-CU-----CGCCCGGCGG- -5'
29897 3' -65 NC_006273.1 + 181687 0.68 0.478223
Target:  5'- uGUUGCCUgaaCGAGCauucacaacucucgGAGCGGGUgGCCu -3'
miRNA:   3'- -UAGCGGAgg-GCUCG--------------CUCGCCCGgCGG- -5'
29897 3' -65 NC_006273.1 + 46308 0.75 0.200981
Target:  5'- -cCGCCgCCCGGGCGcaagaAGC-GGCCGCCu -3'
miRNA:   3'- uaGCGGaGGGCUCGC-----UCGcCCGGCGG- -5'
29897 3' -65 NC_006273.1 + 1992 0.68 0.497467
Target:  5'- cGUCGCg-CCagcGGCGAGCGgcacggagacggaGGCCGCCg -3'
miRNA:   3'- -UAGCGgaGGgc-UCGCUCGC-------------CCGGCGG- -5'
29897 3' -65 NC_006273.1 + 194885 0.75 0.205603
Target:  5'- gGUCGCCUgUCCGgcAGC-AGcCGGGCCGCCu -3'
miRNA:   3'- -UAGCGGA-GGGC--UCGcUC-GCCCGGCGG- -5'
29897 3' -65 NC_006273.1 + 131411 0.69 0.467026
Target:  5'- -aCGCCUCCaUGGGCGAGuUcgcgcgucugcuacuGGGCuCGCCc -3'
miRNA:   3'- uaGCGGAGG-GCUCGCUC-G---------------CCCG-GCGG- -5'
29897 3' -65 NC_006273.1 + 200662 0.68 0.49835
Target:  5'- uGUCGCacgCCCGAGgaucuGGC-GGCCGCCg -3'
miRNA:   3'- -UAGCGga-GGGCUCgc---UCGcCCGGCGG- -5'
29897 3' -65 NC_006273.1 + 201150 0.68 0.52515
Target:  5'- -cUGCCUgCCG-GCGGcccugugccGCGGGuuGCCc -3'
miRNA:   3'- uaGCGGAgGGCuCGCU---------CGCCCggCGG- -5'
29897 3' -65 NC_006273.1 + 158804 0.73 0.257036
Target:  5'- aGUCGCCU-CCGGGCGAgGUGGG-CGCUu -3'
miRNA:   3'- -UAGCGGAgGGCUCGCU-CGCCCgGCGG- -5'
29897 3' -65 NC_006273.1 + 195129 0.69 0.422041
Target:  5'- cGUCGCC-CCagaaGAGCG-GUacgGGGCCGCa -3'
miRNA:   3'- -UAGCGGaGGg---CUCGCuCG---CCCGGCGg -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.