miRNA display CGI


Results 1 - 20 of 27 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
11586 3' -58 NC_003085.1 + 29835 0.66 0.57162
Target:  5'- --gGCCaGUGCGc-ACGAGGUGGggcGCGAc -3'
miRNA:   3'- cuaCGG-CACGCcuUGCUCCGCC---UGCU- -5'
11586 3' -58 NC_003085.1 + 47209 0.66 0.57162
Target:  5'- cGAUGaCGUGCaG-ACGGGcGCGGAgGAu -3'
miRNA:   3'- -CUACgGCACGcCuUGCUC-CGCCUgCU- -5'
11586 3' -58 NC_003085.1 + 26888 0.66 0.568408
Target:  5'- --cGCCG-GUGGGugGAcucaacaccgucucGGCGGGCa- -3'
miRNA:   3'- cuaCGGCaCGCCUugCU--------------CCGCCUGcu -5'
11586 3' -58 NC_003085.1 + 3566 0.66 0.557735
Target:  5'- gGcgGCCGgGCGGcAAgcgcgccucgcugcCGAGGCGG-CGAa -3'
miRNA:   3'- -CuaCGGCaCGCC-UU--------------GCUCCGCCuGCU- -5'
11586 3' -58 NC_003085.1 + 34104 0.66 0.529227
Target:  5'- uAUGCCGUcaccaucCGGAACGAGaGCGGcCa- -3'
miRNA:   3'- cUACGGCAc------GCCUUGCUC-CGCCuGcu -5'
11586 3' -58 NC_003085.1 + 24406 0.66 0.529227
Target:  5'- cGUGCCG-GUGGAccCGAcGGUGGGCa- -3'
miRNA:   3'- cUACGGCaCGCCUu-GCU-CCGCCUGcu -5'
11586 3' -58 NC_003085.1 + 44331 0.66 0.529227
Target:  5'- gGAUGCCuggGCGGcGACGcGGGagaGGGCGGc -3'
miRNA:   3'- -CUACGGca-CGCC-UUGC-UCCg--CCUGCU- -5'
11586 3' -58 NC_003085.1 + 23877 0.66 0.518803
Target:  5'- cGGUGCU--GCGGAcuGCGAcuaccGGCcGGACGAa -3'
miRNA:   3'- -CUACGGcaCGCCU--UGCU-----CCG-CCUGCU- -5'
11586 3' -58 NC_003085.1 + 13212 0.67 0.498206
Target:  5'- --gGUCGcUG-GGAACGGGGUGcGGCGAu -3'
miRNA:   3'- cuaCGGC-ACgCCUUGCUCCGC-CUGCU- -5'
11586 3' -58 NC_003085.1 + 752 0.67 0.477983
Target:  5'- --gGCCGgacGCGGGAC-AGGUGGccgGCGAc -3'
miRNA:   3'- cuaCGGCa--CGCCUUGcUCCGCC---UGCU- -5'
11586 3' -58 NC_003085.1 + 37073 0.68 0.448434
Target:  5'- --cGaCGUGCGGAuGC-AGGUGGACGGc -3'
miRNA:   3'- cuaCgGCACGCCU-UGcUCCGCCUGCU- -5'
11586 3' -58 NC_003085.1 + 13676 0.68 0.448434
Target:  5'- cGGUGCCagaCGGAGCGAGuGCGcGACa- -3'
miRNA:   3'- -CUACGGcacGCCUUGCUC-CGC-CUGcu -5'
11586 3' -58 NC_003085.1 + 30198 0.68 0.445535
Target:  5'- uGggGCCGgcgGCGGAugGcguccguguagaggAGGCGGcCGGc -3'
miRNA:   3'- -CuaCGGCa--CGCCUugC--------------UCCGCCuGCU- -5'
11586 3' -58 NC_003085.1 + 41908 0.68 0.43881
Target:  5'- --cGCCGgGCGGGACucauGGGGCgcuuGGGCGGc -3'
miRNA:   3'- cuaCGGCaCGCCUUG----CUCCG----CCUGCU- -5'
11586 3' -58 NC_003085.1 + 49000 0.68 0.398824
Target:  5'- -cUGCCcucGCGGAgauuggcgaacggcGCGAGGCGGcGCGGc -3'
miRNA:   3'- cuACGGca-CGCCU--------------UGCUCCGCC-UGCU- -5'
11586 3' -58 NC_003085.1 + 28748 0.69 0.383672
Target:  5'- --cGCaccggGUGCGGGACG-GGUGGACu- -3'
miRNA:   3'- cuaCGg----CACGCCUUGCuCCGCCUGcu -5'
11586 3' -58 NC_003085.1 + 42440 0.69 0.374939
Target:  5'- cAUGCCGccgagggcaUGCGcGAGCG-GGCGG-CGAa -3'
miRNA:   3'- cUACGGC---------ACGC-CUUGCuCCGCCuGCU- -5'
11586 3' -58 NC_003085.1 + 40767 0.69 0.366341
Target:  5'- --gGCCucGUGUGGcuGACGuuGGCGGACGGc -3'
miRNA:   3'- cuaCGG--CACGCC--UUGCu-CCGCCUGCU- -5'
11586 3' -58 NC_003085.1 + 5592 0.69 0.355369
Target:  5'- --cGCCcugGUGCGGAcgaugcugagugacGCGGuGGUGGACGGg -3'
miRNA:   3'- cuaCGG---CACGCCU--------------UGCU-CCGCCUGCU- -5'
11586 3' -58 NC_003085.1 + 11587 0.7 0.349558
Target:  5'- --cGCCuG-GCuGGAACGGGGCaGGGCGGc -3'
miRNA:   3'- cuaCGG-CaCG-CCUUGCUCCG-CCUGCU- -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.