miRNA display CGI


Results 1 - 20 of 36 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
15689 3' -60.3 NC_004065.1 + 67532 0.66 0.863325
Target:  5'- gGUCCUgCgUCUCCG-CCGUGccguugaaCGGCCGc -3'
miRNA:   3'- -CAGGA-GgAGAGGCaGGCACc-------GCUGGC- -5'
15689 3' -60.3 NC_004065.1 + 124800 0.66 0.863325
Target:  5'- -aUCUCCUCguccgaCGUCCGccgGGCGuCCa -3'
miRNA:   3'- caGGAGGAGag----GCAGGCa--CCGCuGGc -5'
15689 3' -60.3 NC_004065.1 + 203598 0.66 0.863325
Target:  5'- aGUCCggaCUCggacgaguccUCUGUcCCGUGGCGAgCGc -3'
miRNA:   3'- -CAGGag-GAG----------AGGCA-GGCACCGCUgGC- -5'
15689 3' -60.3 NC_004065.1 + 25481 0.66 0.863325
Target:  5'- -aCCUCC-CgCCGcCCGacgaggcgucUGGCGACCa -3'
miRNA:   3'- caGGAGGaGaGGCaGGC----------ACCGCUGGc -5'
15689 3' -60.3 NC_004065.1 + 127738 0.66 0.856148
Target:  5'- -gCCUUgUCcUCGUCgGUGGCG-CCGg -3'
miRNA:   3'- caGGAGgAGaGGCAGgCACCGCuGGC- -5'
15689 3' -60.3 NC_004065.1 + 6354 0.66 0.855421
Target:  5'- uUCCUCCaUCUCCGUCCGcauucucUGaCG-CCa -3'
miRNA:   3'- cAGGAGG-AGAGGCAGGC-------ACcGCuGGc -5'
15689 3' -60.3 NC_004065.1 + 43408 0.66 0.848794
Target:  5'- cGUUC-CCg--CCGUCCGUGcgcgugucuuccGCGGCCGg -3'
miRNA:   3'- -CAGGaGGagaGGCAGGCAC------------CGCUGGC- -5'
15689 3' -60.3 NC_004065.1 + 197590 0.66 0.848794
Target:  5'- -aCCUCCUCcaucgucuagacUCCGUCuCGUGGCaGGUCa -3'
miRNA:   3'- caGGAGGAG------------AGGCAG-GCACCG-CUGGc -5'
15689 3' -60.3 NC_004065.1 + 54258 0.66 0.841267
Target:  5'- cGUCa-UCUC-CCGUCC--GGCGACCGg -3'
miRNA:   3'- -CAGgaGGAGaGGCAGGcaCCGCUGGC- -5'
15689 3' -60.3 NC_004065.1 + 169464 0.66 0.833573
Target:  5'- gGUCUUUCUCUucgCCGUgaUCGUGGCGgguACCa -3'
miRNA:   3'- -CAGGAGGAGA---GGCA--GGCACCGC---UGGc -5'
15689 3' -60.3 NC_004065.1 + 161914 0.66 0.832795
Target:  5'- gGUCaCUCgUCUcgagucaCCGUCCGUaGCGACuCGg -3'
miRNA:   3'- -CAG-GAGgAGA-------GGCAGGCAcCGCUG-GC- -5'
15689 3' -60.3 NC_004065.1 + 122876 0.66 0.825718
Target:  5'- -gCCUCgUCUCCGUCuCGgacUGG-GACCu -3'
miRNA:   3'- caGGAGgAGAGGCAG-GC---ACCgCUGGc -5'
15689 3' -60.3 NC_004065.1 + 46117 0.66 0.823332
Target:  5'- gGUCUUCCUCcgucggagcggccaUCgCGUcCCGU-GCGGCCGg -3'
miRNA:   3'- -CAGGAGGAG--------------AG-GCA-GGCAcCGCUGGC- -5'
15689 3' -60.3 NC_004065.1 + 118020 0.66 0.81771
Target:  5'- cGUCCUCCUC-CCGaCgGaggaucaGGCGGCCc -3'
miRNA:   3'- -CAGGAGGAGaGGCaGgCa------CCGCUGGc -5'
15689 3' -60.3 NC_004065.1 + 102660 0.66 0.81771
Target:  5'- --gCUCCUC-CCGUCCGUcgacgaGGCG-CUGa -3'
miRNA:   3'- cagGAGGAGaGGCAGGCA------CCGCuGGC- -5'
15689 3' -60.3 NC_004065.1 + 88430 0.67 0.792823
Target:  5'- cUUCUCCUUUcCCGUCCGccgcucguccGGCGAgCGg -3'
miRNA:   3'- cAGGAGGAGA-GGCAGGCa---------CCGCUgGC- -5'
15689 3' -60.3 NC_004065.1 + 63834 0.67 0.784264
Target:  5'- -gCCUCUUCUUCcUCuCGaUGGUGGCCGa -3'
miRNA:   3'- caGGAGGAGAGGcAG-GC-ACCGCUGGC- -5'
15689 3' -60.3 NC_004065.1 + 196147 0.67 0.784264
Target:  5'- aGUCCUCCUCcUCGUUCGUGuacaucucccCGGCCu -3'
miRNA:   3'- -CAGGAGGAGaGGCAGGCACc---------GCUGGc -5'
15689 3' -60.3 NC_004065.1 + 228208 0.67 0.766794
Target:  5'- aUCCUCCUucccCUCCGUCC-UGaaacaucCGACCGa -3'
miRNA:   3'- cAGGAGGA----GAGGCAGGcACc------GCUGGC- -5'
15689 3' -60.3 NC_004065.1 + 36430 0.68 0.757898
Target:  5'- uUCCUgcugCCgucgCUUCGUCCGcGGCGACUc -3'
miRNA:   3'- cAGGA----GGa---GAGGCAGGCaCCGCUGGc -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.