miRNA display CGI


Results 1 - 20 of 78 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
16114 3' -59.1 NC_004065.1 + 151932 0.65 0.900468
Target:  5'- cAUGUuaGCCGcGCacagcggGUCCGCGAACAGg -3'
miRNA:   3'- cUGCAggCGGCcCG-------CAGGUGCUUGUC- -5'
16114 3' -59.1 NC_004065.1 + 199542 0.65 0.899864
Target:  5'- gGGCGccUCCaGCCGGGCGcgccccaucgugCCGCGGucCAGa -3'
miRNA:   3'- -CUGC--AGG-CGGCCCGCa-----------GGUGCUu-GUC- -5'
16114 3' -59.1 NC_004065.1 + 148758 0.66 0.894952
Target:  5'- gGGCGUCC-UC-GGCGUCCAggaugaaGAACAGg -3'
miRNA:   3'- -CUGCAGGcGGcCCGCAGGUg------CUUGUC- -5'
16114 3' -59.1 NC_004065.1 + 196236 0.66 0.894952
Target:  5'- cACGUCCGCauguCGGGCcgaaagcgGUCCcgGCGAcACAGc -3'
miRNA:   3'- cUGCAGGCG----GCCCG--------CAGG--UGCU-UGUC- -5'
16114 3' -59.1 NC_004065.1 + 96277 0.66 0.894952
Target:  5'- cGGCGgggCgGCCagGGGCGUC-ACGGACGc -3'
miRNA:   3'- -CUGCa--GgCGG--CCCGCAGgUGCUUGUc -5'
16114 3' -59.1 NC_004065.1 + 114318 0.66 0.894952
Target:  5'- uGAUGUCCauCCuGGCGgccgCCGCGAAaCAGa -3'
miRNA:   3'- -CUGCAGGc-GGcCCGCa---GGUGCUU-GUC- -5'
16114 3' -59.1 NC_004065.1 + 188652 0.66 0.888628
Target:  5'- cGAUGUCCGCUcgaGGGCGcgCgGCGGgagacgACGGu -3'
miRNA:   3'- -CUGCAGGCGG---CCCGCa-GgUGCU------UGUC- -5'
16114 3' -59.1 NC_004065.1 + 29584 0.66 0.888628
Target:  5'- uGACGgCgGCCGcGGUGaCCGCGGuccuGCAGg -3'
miRNA:   3'- -CUGCaGgCGGC-CCGCaGGUGCU----UGUC- -5'
16114 3' -59.1 NC_004065.1 + 83672 0.66 0.888628
Target:  5'- cGAUGUCCaGCCcgaucaGGGUGUCgACGAGuuGg -3'
miRNA:   3'- -CUGCAGG-CGG------CCCGCAGgUGCUUguC- -5'
16114 3' -59.1 NC_004065.1 + 205905 0.66 0.882102
Target:  5'- uGACGgaugggCCGCCGaggccgacgucGGCG-CCAUGGACGu -3'
miRNA:   3'- -CUGCa-----GGCGGC-----------CCGCaGGUGCUUGUc -5'
16114 3' -59.1 NC_004065.1 + 187657 0.66 0.875378
Target:  5'- cAUGUCgG-CGGG-GUCCACGGGCAc -3'
miRNA:   3'- cUGCAGgCgGCCCgCAGGUGCUUGUc -5'
16114 3' -59.1 NC_004065.1 + 128520 0.66 0.875378
Target:  5'- cGACGaugCCuCCGcGGCGUCgACGGAgAGu -3'
miRNA:   3'- -CUGCa--GGcGGC-CCGCAGgUGCUUgUC- -5'
16114 3' -59.1 NC_004065.1 + 43048 0.66 0.875378
Target:  5'- cGCGUCgGCuucuCGaGGCGUCgGCGcGACAGa -3'
miRNA:   3'- cUGCAGgCG----GC-CCGCAGgUGC-UUGUC- -5'
16114 3' -59.1 NC_004065.1 + 138418 0.66 0.875378
Target:  5'- gGACGgaacaacaaCCGCCGuGCGUCCuCGAGgGGu -3'
miRNA:   3'- -CUGCa--------GGCGGCcCGCAGGuGCUUgUC- -5'
16114 3' -59.1 NC_004065.1 + 192528 0.66 0.875378
Target:  5'- uGGCGgagagCCGCCaGGgGUCCGC--ACAGc -3'
miRNA:   3'- -CUGCa----GGCGGcCCgCAGGUGcuUGUC- -5'
16114 3' -59.1 NC_004065.1 + 206329 0.66 0.875378
Target:  5'- -uUGUCgGgCGGGUGUCUggccucgguACGGACGGg -3'
miRNA:   3'- cuGCAGgCgGCCCGCAGG---------UGCUUGUC- -5'
16114 3' -59.1 NC_004065.1 + 102881 0.66 0.875378
Target:  5'- gGGCGaucgccgCCGCCGGuaGCGccgccgCCGCGAugGGg -3'
miRNA:   3'- -CUGCa------GGCGGCC--CGCa-----GGUGCUugUC- -5'
16114 3' -59.1 NC_004065.1 + 76730 0.66 0.875378
Target:  5'- uACGguUCCGUUcGGCGUCCAUGAugAa -3'
miRNA:   3'- cUGC--AGGCGGcCCGCAGGUGCUugUc -5'
16114 3' -59.1 NC_004065.1 + 138241 0.66 0.874695
Target:  5'- aGGCGcucgCCGCCgucgaggagggucGGGUGUCCgagGCGGACGu -3'
miRNA:   3'- -CUGCa---GGCGG-------------CCCGCAGG---UGCUUGUc -5'
16114 3' -59.1 NC_004065.1 + 20364 0.66 0.86846
Target:  5'- cGGCGUCgacgGCCGGGC-UUCAUGAuGCGGu -3'
miRNA:   3'- -CUGCAGg---CGGCCCGcAGGUGCU-UGUC- -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.