miRNA display CGI


Results 1 - 20 of 35 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
16338 5' -53.6 NC_004084.1 + 43053 0.66 0.864211
Target:  5'- cUUCCAUggaCUCGGCCGUCUCac---CGCc -3'
miRNA:   3'- -AGGGUA---GAGCUGGCAGAGcagaaGCG- -5'
16338 5' -53.6 NC_004084.1 + 55849 0.66 0.864211
Target:  5'- -gCCGUCaaCGACgCGga-CGUCUUCGCg -3'
miRNA:   3'- agGGUAGa-GCUG-GCagaGCAGAAGCG- -5'
16338 5' -53.6 NC_004084.1 + 47998 0.66 0.856042
Target:  5'- uUCUCGUcCUCGACCaucaGUCcaccUCGcggaguUCUUCGCg -3'
miRNA:   3'- -AGGGUA-GAGCUGG----CAG----AGC------AGAAGCG- -5'
16338 5' -53.6 NC_004084.1 + 19931 0.66 0.856042
Target:  5'- gCCgAUCUCGACCaG-CUCGUCcaggUUGg -3'
miRNA:   3'- aGGgUAGAGCUGG-CaGAGCAGa---AGCg -5'
16338 5' -53.6 NC_004084.1 + 21596 0.66 0.856042
Target:  5'- -aCCGgcgagcagCUgGACCGUCUCGggacgaUCUUCGa -3'
miRNA:   3'- agGGUa-------GAgCUGGCAGAGC------AGAAGCg -5'
16338 5' -53.6 NC_004084.1 + 19067 0.66 0.847642
Target:  5'- aUCCGUaagggcgCGGCCGUCUaCGUCgacgUCGa -3'
miRNA:   3'- aGGGUAga-----GCUGGCAGA-GCAGa---AGCg -5'
16338 5' -53.6 NC_004084.1 + 48471 0.66 0.839892
Target:  5'- gCUCAUCUCcuGACCGagcaacucgcugaggCUCGUCgaggCGCu -3'
miRNA:   3'- aGGGUAGAG--CUGGCa--------------GAGCAGaa--GCG- -5'
16338 5' -53.6 NC_004084.1 + 28650 0.66 0.839019
Target:  5'- aCCCGUCgcgaugcagGACgGUCaUCGUCU-CGCc -3'
miRNA:   3'- aGGGUAGag-------CUGgCAG-AGCAGAaGCG- -5'
16338 5' -53.6 NC_004084.1 + 49450 0.66 0.830183
Target:  5'- gCCC-UCgUCGccGCCGUCuUCGUCgcCGCu -3'
miRNA:   3'- aGGGuAG-AGC--UGGCAG-AGCAGaaGCG- -5'
16338 5' -53.6 NC_004084.1 + 17325 0.66 0.830183
Target:  5'- cUCCCGcggCGACggcccgcauCGUCUCGUCgacguacUCGCg -3'
miRNA:   3'- -AGGGUagaGCUG---------GCAGAGCAGa------AGCG- -5'
16338 5' -53.6 NC_004084.1 + 45280 0.66 0.821141
Target:  5'- gUCCgaAUCgUCG-CCGUCgaaGUCUUCGUc -3'
miRNA:   3'- -AGGg-UAG-AGCuGGCAGag-CAGAAGCG- -5'
16338 5' -53.6 NC_004084.1 + 57598 0.67 0.799618
Target:  5'- gCCCGUCUCGAacggguugaggaguUCGcgCuUCGUCUcgaggUCGCg -3'
miRNA:   3'- aGGGUAGAGCU--------------GGCa-G-AGCAGA-----AGCG- -5'
16338 5' -53.6 NC_004084.1 + 22370 0.67 0.788018
Target:  5'- cCCCAccaggguaugCGGCCGUcCUCGUCUccguuccuuccgguUCGCu -3'
miRNA:   3'- aGGGUaga-------GCUGGCA-GAGCAGA--------------AGCG- -5'
16338 5' -53.6 NC_004084.1 + 47232 0.67 0.773196
Target:  5'- gUCCCAcgcugcUUCGACCGcgaUCGUgaUCGCg -3'
miRNA:   3'- -AGGGUa-----GAGCUGGCag-AGCAgaAGCG- -5'
16338 5' -53.6 NC_004084.1 + 25784 0.68 0.732197
Target:  5'- gUUUCAa--CGACCGUCUCGUCcucCGCa -3'
miRNA:   3'- -AGGGUagaGCUGGCAGAGCAGaa-GCG- -5'
16338 5' -53.6 NC_004084.1 + 45921 0.68 0.731149
Target:  5'- --gCAUCUCGGCCGUguagaccUUCGUcCUUCGg -3'
miRNA:   3'- aggGUAGAGCUGGCA-------GAGCA-GAAGCg -5'
16338 5' -53.6 NC_004084.1 + 7266 0.69 0.71106
Target:  5'- -aCCGUCUCGAUCGccucCUCGUUcgggaUCGCc -3'
miRNA:   3'- agGGUAGAGCUGGCa---GAGCAGa----AGCG- -5'
16338 5' -53.6 NC_004084.1 + 35976 0.69 0.700371
Target:  5'- gUCCCGaCUCGAUCaG-CUCGUCUccgacCGCg -3'
miRNA:   3'- -AGGGUaGAGCUGG-CaGAGCAGAa----GCG- -5'
16338 5' -53.6 NC_004084.1 + 33742 0.69 0.700371
Target:  5'- aUUUCGg--CGACCGUUUCcUCUUCGCu -3'
miRNA:   3'- -AGGGUagaGCUGGCAGAGcAGAAGCG- -5'
16338 5' -53.6 NC_004084.1 + 52731 0.69 0.700371
Target:  5'- -aCCAUCgUCGAguaucuucaCCGUCUCGUCgacggUgGCu -3'
miRNA:   3'- agGGUAG-AGCU---------GGCAGAGCAGa----AgCG- -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.