miRNA display CGI


Results 1 - 20 of 37 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
27233 3' -59.1 NC_005832.1 + 97194 1.08 0.00089
Target:  5'- gAAGCUCGACAGGCUCCUGGAGCAGGCc -3'
miRNA:   3'- -UUCGAGCUGUCCGAGGACCUCGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 86134 0.75 0.20847
Target:  5'- -uGCUCuGCAGGCUCCUGcugcugcucuGCAGGCu -3'
miRNA:   3'- uuCGAGcUGUCCGAGGACcu--------CGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 86176 0.75 0.20847
Target:  5'- -uGCUCuGCAGGCUCCUGcugcugcucuGCAGGCu -3'
miRNA:   3'- uuCGAGcUGUCCGAGGACcu--------CGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 7814 0.73 0.267013
Target:  5'- aGAGUcCuACAGGCUCCUcaGGGGCAGGg -3'
miRNA:   3'- -UUCGaGcUGUCCGAGGA--CCUCGUCCg -5'
27233 3' -59.1 NC_005832.1 + 89702 0.72 0.303105
Target:  5'- gAAGCUCGACAGGCUgacggccccccuggCCUGGuaccuggucuacuGCuGGGCc -3'
miRNA:   3'- -UUCGAGCUGUCCGA--------------GGACCu------------CG-UCCG- -5'
27233 3' -59.1 NC_005832.1 + 85919 0.72 0.30742
Target:  5'- uGGGCUUcGCAGGCUCCUGGAcCuuuugagGGGCc -3'
miRNA:   3'- -UUCGAGcUGUCCGAGGACCUcG-------UCCG- -5'
27233 3' -59.1 NC_005832.1 + 87517 0.72 0.311051
Target:  5'- cAGGCUggcggccauguaccaCGACGGGCUCCUGGAcucGGCc -3'
miRNA:   3'- -UUCGA---------------GCUGUCCGAGGACCUcguCCG- -5'
27233 3' -59.1 NC_005832.1 + 15958 0.72 0.330457
Target:  5'- uGAGUaUCGACAGGgcCUCUUGGAGCGccucucccGGCa -3'
miRNA:   3'- -UUCG-AGCUGUCC--GAGGACCUCGU--------CCG- -5'
27233 3' -59.1 NC_005832.1 + 97517 0.71 0.378574
Target:  5'- -uGCUCGGuCAGGCUCUUGaGAcgGuCGGGCu -3'
miRNA:   3'- uuCGAGCU-GUCCGAGGAC-CU--C-GUCCG- -5'
27233 3' -59.1 NC_005832.1 + 9604 0.7 0.404335
Target:  5'- gGAGCUCcuccACA---UCCUGGGGCAGGCu -3'
miRNA:   3'- -UUCGAGc---UGUccgAGGACCUCGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 97087 0.7 0.404335
Target:  5'- gAGGCccugUCGACcucagacGC-CCUGGAGCAGGCc -3'
miRNA:   3'- -UUCG----AGCUGuc-----CGaGGACCUCGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 54764 0.7 0.409618
Target:  5'- cGGCggacgUCGACAGGUacuuugagcagugCCUGG-GCAGGCu -3'
miRNA:   3'- uUCG-----AGCUGUCCGa------------GGACCuCGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 71159 0.7 0.413164
Target:  5'- gGGGCUgGAgAGGCUCUcc-GGCGGGCa -3'
miRNA:   3'- -UUCGAgCUgUCCGAGGaccUCGUCCG- -5'
27233 3' -59.1 NC_005832.1 + 56543 0.7 0.431175
Target:  5'- -cGCUCccgugggaGugGGGUUCCUGGccGGCAGGa -3'
miRNA:   3'- uuCGAG--------CugUCCGAGGACC--UCGUCCg -5'
27233 3' -59.1 NC_005832.1 + 87716 0.7 0.431175
Target:  5'- -uGCUC-AUGGGCUCCaGGAGCcuuugguccggAGGCa -3'
miRNA:   3'- uuCGAGcUGUCCGAGGaCCUCG-----------UCCG- -5'
27233 3' -59.1 NC_005832.1 + 21134 0.69 0.439429
Target:  5'- gAGGC-CGGCGGGagcugggaUCCUGGAGgacagagccaguuCAGGCg -3'
miRNA:   3'- -UUCGaGCUGUCCg-------AGGACCUC-------------GUCCG- -5'
27233 3' -59.1 NC_005832.1 + 97464 0.68 0.497598
Target:  5'- cAAGCUCGACAGcgUCCUGG-GCAaGUa -3'
miRNA:   3'- -UUCGAGCUGUCcgAGGACCuCGUcCG- -5'
27233 3' -59.1 NC_005832.1 + 4991 0.68 0.506478
Target:  5'- aGGGaCUCugacgugGACAGGgUCCUGG-GCAGGg -3'
miRNA:   3'- -UUC-GAG-------CUGUCCgAGGACCuCGUCCg -5'
27233 3' -59.1 NC_005832.1 + 46095 0.68 0.507469
Target:  5'- cAAGCagG-UGGGUUCCUGGuGCAGGg -3'
miRNA:   3'- -UUCGagCuGUCCGAGGACCuCGUCCg -5'
27233 3' -59.1 NC_005832.1 + 46662 0.68 0.516423
Target:  5'- ----gUGGCGGGCUCCaGGAaugccaggcgccuGCAGGCg -3'
miRNA:   3'- uucgaGCUGUCCGAGGaCCU-------------CGUCCG- -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.