miRNA display CGI


Results 1 - 20 of 25 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
16141 3' -56.6 NC_004065.1 + 56369 0.66 0.942959
Target:  5'- gAGCUggacgggguccggCAGGGUCGGaGGCG-CUCCGAu -3'
miRNA:   3'- gUCGA-------------GUUCCAGUCcUCGUgGAGGCU- -5'
16141 3' -56.6 NC_004065.1 + 34964 0.66 0.931158
Target:  5'- gAGCUC--GGUCAGGggcaguaaacaggaaGGCACCUCg-- -3'
miRNA:   3'- gUCGAGuuCCAGUCC---------------UCGUGGAGgcu -5'
16141 3' -56.6 NC_004065.1 + 59553 0.66 0.929138
Target:  5'- gAGCUCGccgagcGGUCugcGGcggcagcgaaGGCGCCUCCGGc -3'
miRNA:   3'- gUCGAGUu-----CCAGu--CC----------UCGUGGAGGCU- -5'
16141 3' -56.6 NC_004065.1 + 71465 0.66 0.929138
Target:  5'- aAGC-CAGGG-CAGGAGC-CgUUCGAc -3'
miRNA:   3'- gUCGaGUUCCaGUCCUCGuGgAGGCU- -5'
16141 3' -56.6 NC_004065.1 + 201438 0.66 0.929138
Target:  5'- aCAGCUCcuGGUCGGGugGGgGCUcgagCCGGa -3'
miRNA:   3'- -GUCGAGuuCCAGUCC--UCgUGGa---GGCU- -5'
16141 3' -56.6 NC_004065.1 + 120875 0.66 0.923929
Target:  5'- cCGGCUugccCGGGGUCAGGgcGGCGUCUCgCGGc -3'
miRNA:   3'- -GUCGA----GUUCCAGUCC--UCGUGGAG-GCU- -5'
16141 3' -56.6 NC_004065.1 + 44878 0.66 0.923929
Target:  5'- -cGCUCGAG--CAGGA-CGCCUCCGu -3'
miRNA:   3'- guCGAGUUCcaGUCCUcGUGGAGGCu -5'
16141 3' -56.6 NC_004065.1 + 151288 0.66 0.923929
Target:  5'- -uGUUCGAGGUCGGGAug-UCUCUGAa -3'
miRNA:   3'- guCGAGUUCCAGUCCUcguGGAGGCU- -5'
16141 3' -56.6 NC_004065.1 + 68143 0.67 0.912827
Target:  5'- gAGCguc-GGUCAggccgccgauGGAGCACCUCCc- -3'
miRNA:   3'- gUCGaguuCCAGU----------CCUCGUGGAGGcu -5'
16141 3' -56.6 NC_004065.1 + 52851 0.67 0.912827
Target:  5'- uGGUUCAAcauagacucuGGcCAGGAcGCuCCUCCGAu -3'
miRNA:   3'- gUCGAGUU----------CCaGUCCU-CGuGGAGGCU- -5'
16141 3' -56.6 NC_004065.1 + 161466 0.67 0.906937
Target:  5'- gAGCUCcGGGccuUCGGGAcGCcgucACCUCCGc -3'
miRNA:   3'- gUCGAGuUCC---AGUCCU-CG----UGGAGGCu -5'
16141 3' -56.6 NC_004065.1 + 144571 0.68 0.880473
Target:  5'- uCAGCU--GGGUCAGGuuCACCaccgccgUCCGAu -3'
miRNA:   3'- -GUCGAguUCCAGUCCucGUGG-------AGGCU- -5'
16141 3' -56.6 NC_004065.1 + 115811 0.68 0.866994
Target:  5'- gGGCUgCAGcGUCAGGAGCuguCUCUGAg -3'
miRNA:   3'- gUCGA-GUUcCAGUCCUCGug-GAGGCU- -5'
16141 3' -56.6 NC_004065.1 + 207782 0.68 0.859605
Target:  5'- aAGCUCGAGGUCGuGAaaucguuuaacaGCGCCaccguaUCCGAa -3'
miRNA:   3'- gUCGAGUUCCAGUcCU------------CGUGG------AGGCU- -5'
16141 3' -56.6 NC_004065.1 + 4542 0.68 0.85202
Target:  5'- -cGCUCu--GUCAGG-GCGCCUCCc- -3'
miRNA:   3'- guCGAGuucCAGUCCuCGUGGAGGcu -5'
16141 3' -56.6 NC_004065.1 + 19183 0.69 0.828152
Target:  5'- -uGC-CGAGG-CGGGA-CACCUCCGGc -3'
miRNA:   3'- guCGaGUUCCaGUCCUcGUGGAGGCU- -5'
16141 3' -56.6 NC_004065.1 + 135926 0.69 0.819847
Target:  5'- aAGCUCAugaGGGUCGguGGGGaugGCCUCUGGc -3'
miRNA:   3'- gUCGAGU---UCCAGU--CCUCg--UGGAGGCU- -5'
16141 3' -56.6 NC_004065.1 + 202742 0.69 0.811379
Target:  5'- uCGGCUCGu-GUCccGAGCGCCgUCCGAa -3'
miRNA:   3'- -GUCGAGUucCAGucCUCGUGG-AGGCU- -5'
16141 3' -56.6 NC_004065.1 + 112652 0.7 0.766874
Target:  5'- cCAGCUCGuGGUCA-GAGCGCUgcacgCUGAa -3'
miRNA:   3'- -GUCGAGUuCCAGUcCUCGUGGa----GGCU- -5'
16141 3' -56.6 NC_004065.1 + 200271 0.7 0.766874
Target:  5'- uCGGCUCucg--CAGGAGUACCUCUGc -3'
miRNA:   3'- -GUCGAGuuccaGUCCUCGUGGAGGCu -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.