miRNA display CGI


Results 1 - 20 of 26 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
30913 3' -57.7 NC_006552.1 + 5598 0.66 0.590759
Target:  5'- -aAGCcGGcCAGGCuGACGGucaGCGCGGCa -3'
miRNA:   3'- ugUCGuUC-GUCCGcCUGUC---CGCGUUG- -5'
30913 3' -57.7 NC_006552.1 + 15745 0.66 0.579917
Target:  5'- gUAGCcGGCAuccGGCGGu--GGCGCGAg -3'
miRNA:   3'- uGUCGuUCGU---CCGCCuguCCGCGUUg -5'
30913 3' -57.7 NC_006552.1 + 59466 0.66 0.55837
Target:  5'- gGCGGCuGAGCuGcUGGugAGGCGCcACu -3'
miRNA:   3'- -UGUCG-UUCGuCcGCCugUCCGCGuUG- -5'
30913 3' -57.7 NC_006552.1 + 21725 0.67 0.535996
Target:  5'- cACAGCAAGCgaccggaAGGUauACGGcGCGUAGCg -3'
miRNA:   3'- -UGUCGUUCG-------UCCGccUGUC-CGCGUUG- -5'
30913 3' -57.7 NC_006552.1 + 18287 0.67 0.526501
Target:  5'- aGCAGCcGGCAacaccuGGCcucgccCGGGCGCAGCa -3'
miRNA:   3'- -UGUCGuUCGU------CCGccu---GUCCGCGUUG- -5'
30913 3' -57.7 NC_006552.1 + 64497 0.67 0.516028
Target:  5'- gGCGGCcuGGCAGGCGG---GGUGCuuCg -3'
miRNA:   3'- -UGUCGu-UCGUCCGCCuguCCGCGuuG- -5'
30913 3' -57.7 NC_006552.1 + 47556 0.67 0.516028
Target:  5'- cACAGCGAGCcaAGGCcuugccGACAGGCagAACg -3'
miRNA:   3'- -UGUCGUUCG--UCCGc-----CUGUCCGcgUUG- -5'
30913 3' -57.7 NC_006552.1 + 15049 0.67 0.505638
Target:  5'- cGCAGCAGGCuguuGGCcGAaCAGGUauuccucgGCAGCc -3'
miRNA:   3'- -UGUCGUUCGu---CCGcCU-GUCCG--------CGUUG- -5'
30913 3' -57.7 NC_006552.1 + 44587 0.67 0.49534
Target:  5'- -gAGUGAGCAGGCGcucgUAGGCgGCAAUg -3'
miRNA:   3'- ugUCGUUCGUCCGCcu--GUCCG-CGUUG- -5'
30913 3' -57.7 NC_006552.1 + 27823 0.67 0.485138
Target:  5'- cGCAGCuucAAGCucacGGCuGGCAGGcCGUAGCc -3'
miRNA:   3'- -UGUCG---UUCGu---CCGcCUGUCC-GCGUUG- -5'
30913 3' -57.7 NC_006552.1 + 56903 0.68 0.479065
Target:  5'- uCGGCGAGgAGugguaccgcgcccgcGCuGGACuGGCGCAACu -3'
miRNA:   3'- uGUCGUUCgUC---------------CG-CCUGuCCGCGUUG- -5'
30913 3' -57.7 NC_006552.1 + 41757 0.68 0.475037
Target:  5'- aACAaCGAGCGGGCgccgucGGACAGGuUGCGGg -3'
miRNA:   3'- -UGUcGUUCGUCCG------CCUGUCC-GCGUUg -5'
30913 3' -57.7 NC_006552.1 + 18860 0.68 0.475037
Target:  5'- uGCAGCAucAGCAGuGCGcuGACGGuGCaCAGCg -3'
miRNA:   3'- -UGUCGU--UCGUC-CGC--CUGUC-CGcGUUG- -5'
30913 3' -57.7 NC_006552.1 + 30404 0.68 0.465043
Target:  5'- gACAcCAGuCGGGUGGAagauaaucgcCAGGCGCAGCc -3'
miRNA:   3'- -UGUcGUUcGUCCGCCU----------GUCCGCGUUG- -5'
30913 3' -57.7 NC_006552.1 + 43087 0.68 0.439584
Target:  5'- cACAGCgAAGUcagGGGUguagaagguguuaucGGcCAGGCGCAGCu -3'
miRNA:   3'- -UGUCG-UUCG---UCCG---------------CCuGUCCGCGUUG- -5'
30913 3' -57.7 NC_006552.1 + 30909 0.68 0.435738
Target:  5'- gGCAGCGGuCGGGCGGACAuGGaGCcuGCu -3'
miRNA:   3'- -UGUCGUUcGUCCGCCUGU-CCgCGu-UG- -5'
30913 3' -57.7 NC_006552.1 + 20370 0.68 0.435738
Target:  5'- cGCGuGgAAGCGGGCGaccucgaACAGGCGCuGCg -3'
miRNA:   3'- -UGU-CgUUCGUCCGCc------UGUCCGCGuUG- -5'
30913 3' -57.7 NC_006552.1 + 26127 0.68 0.435738
Target:  5'- uGCAGguGGUAGGCcagggccucGGAgAaGCGCAGCa -3'
miRNA:   3'- -UGUCguUCGUCCG---------CCUgUcCGCGUUG- -5'
30913 3' -57.7 NC_006552.1 + 32178 0.69 0.386691
Target:  5'- cCAGCAccucggccgacuucAGCAccGGCauGGuCGGGCGCGACa -3'
miRNA:   3'- uGUCGU--------------UCGU--CCG--CCuGUCCGCGUUG- -5'
30913 3' -57.7 NC_006552.1 + 61132 0.71 0.291315
Target:  5'- uCAGCGaagAGCAGGCGuuGGCAGagggaguGCGCGGCg -3'
miRNA:   3'- uGUCGU---UCGUCCGC--CUGUC-------CGCGUUG- -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.