miRNA display CGI


Results 1 - 20 of 23 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
27196 5' -60.5 NC_005832.1 + 29992 0.65 0.683164
Target:  5'- cCCAGGGgcuacaGGAGGuucaagcagucuaGCUCUGUgUCUCCa -3'
miRNA:   3'- -GGUCCC------UCUCCc------------CGAGGCAgAGAGGg -5'
27196 5' -60.5 NC_005832.1 + 40017 0.66 0.677192
Target:  5'- cCCuuuGGGuAGAcGGGa-CCGUCgUCUCCCu -3'
miRNA:   3'- -GGu--CCC-UCUcCCCgaGGCAG-AGAGGG- -5'
27196 5' -60.5 NC_005832.1 + 810 0.66 0.666212
Target:  5'- aCAGGGgcugAGAGGugcagaagcccgaGGCgcaCGUCUgCUCCCc -3'
miRNA:   3'- gGUCCC----UCUCC-------------CCGag-GCAGA-GAGGG- -5'
27196 5' -60.5 NC_005832.1 + 20955 0.66 0.654198
Target:  5'- gCUAGGGAgaccugaccgcaaaGAGGacgccugaacuGGCUCUGUC-CUCCa -3'
miRNA:   3'- -GGUCCCU--------------CUCC-----------CCGAGGCAGaGAGGg -5'
27196 5' -60.5 NC_005832.1 + 89563 0.66 0.647177
Target:  5'- aCCAGGccAGGGGGGCcgucagcCUGUCgagCUUCCu -3'
miRNA:   3'- -GGUCCc-UCUCCCCGa------GGCAGa--GAGGG- -5'
27196 5' -60.5 NC_005832.1 + 65743 0.66 0.646174
Target:  5'- gCAGGGAaucugccGAGGGGgUCuugaCGaaUCUCCCc -3'
miRNA:   3'- gGUCCCU-------CUCCCCgAG----GCagAGAGGG- -5'
27196 5' -60.5 NC_005832.1 + 43285 0.66 0.637138
Target:  5'- cCCGuGGGguucgugcgGGAGGccaGGCUCUGUCUC-CUCg -3'
miRNA:   3'- -GGU-CCC---------UCUCC---CCGAGGCAGAGaGGG- -5'
27196 5' -60.5 NC_005832.1 + 21072 0.67 0.617058
Target:  5'- gCAGGGGGAGGaGGCUggugauugCCGggg--CCCg -3'
miRNA:   3'- gGUCCCUCUCC-CCGA--------GGCagagaGGG- -5'
27196 5' -60.5 NC_005832.1 + 67378 0.67 0.617058
Target:  5'- aCCGGGuAGAGaGGCagCCccCUCUCCCa -3'
miRNA:   3'- -GGUCCcUCUCcCCGa-GGcaGAGAGGG- -5'
27196 5' -60.5 NC_005832.1 + 104912 0.67 0.577083
Target:  5'- aCAGGcugagcaAGAGGGcCUCCGUC-CUCCg -3'
miRNA:   3'- gGUCCc------UCUCCCcGAGGCAGaGAGGg -5'
27196 5' -60.5 NC_005832.1 + 52456 0.67 0.571129
Target:  5'- cCCAGGGuGAGGGuuCUCacgucggccgcauaGUCUggcCUCCCg -3'
miRNA:   3'- -GGUCCCuCUCCCc-GAGg-------------CAGA---GAGGG- -5'
27196 5' -60.5 NC_005832.1 + 38843 0.67 0.567167
Target:  5'- cCCAGGcuuauAGAGaGGGCUCCcgaaGcCUgUCCCa -3'
miRNA:   3'- -GGUCCc----UCUC-CCCGAGG----CaGAgAGGG- -5'
27196 5' -60.5 NC_005832.1 + 11773 0.68 0.557296
Target:  5'- gCCGGGGGGAGgucgacgaGGGCacccugCUGgacgCUUUCCCc -3'
miRNA:   3'- -GGUCCCUCUC--------CCCGa-----GGCa---GAGAGGG- -5'
27196 5' -60.5 NC_005832.1 + 100588 0.68 0.557296
Target:  5'- uCCAGGGGGAcGGucaccGGCUC-GUC-CUCCa -3'
miRNA:   3'- -GGUCCCUCU-CC-----CCGAGgCAGaGAGGg -5'
27196 5' -60.5 NC_005832.1 + 23562 0.68 0.518362
Target:  5'- cCCAGaGGGGGcGGGCaagCCGUUUaCUCUCa -3'
miRNA:   3'- -GGUC-CCUCUcCCCGa--GGCAGA-GAGGG- -5'
27196 5' -60.5 NC_005832.1 + 9880 0.69 0.489884
Target:  5'- cUCAGGGcGGAGGgaggcaGGCUggagCUGUCUgCUCCCu -3'
miRNA:   3'- -GGUCCC-UCUCC------CCGA----GGCAGA-GAGGG- -5'
27196 5' -60.5 NC_005832.1 + 52741 0.69 0.462157
Target:  5'- aCCuGGGAGGGGGaGagaUG-CUCUCCCu -3'
miRNA:   3'- -GGuCCCUCUCCC-CgagGCaGAGAGGG- -5'
27196 5' -60.5 NC_005832.1 + 9729 0.69 0.462157
Target:  5'- cCCAGGauguGGAGGaGCUCCugacgGUgUCUCCCg -3'
miRNA:   3'- -GGUCCc---UCUCCcCGAGG-----CAgAGAGGG- -5'
27196 5' -60.5 NC_005832.1 + 11885 0.71 0.38436
Target:  5'- cUCGGcGGuGA-GGGCUCCGUCUC-CCa -3'
miRNA:   3'- -GGUC-CCuCUcCCCGAGGCAGAGaGGg -5'
27196 5' -60.5 NC_005832.1 + 73136 0.71 0.352679
Target:  5'- gUCGGGGccuuuGGGGcCUCUGUCUC-CCCu -3'
miRNA:   3'- -GGUCCCucu--CCCC-GAGGCAGAGaGGG- -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.