miRNA display CGI


Results 1 - 20 of 42 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
16440 3' -50.3 NC_004084.1 + 46946 0.66 0.959382
Target:  5'- --gUCGUgccCGAgCGGCUGcUUCGAACUc -3'
miRNA:   3'- caaAGCA---GCU-GCCGGCuAAGCUUGAc -5'
16440 3' -50.3 NC_004084.1 + 57408 0.66 0.959382
Target:  5'- ---gCGUCGACGucGCCGg--CGAGCUc -3'
miRNA:   3'- caaaGCAGCUGC--CGGCuaaGCUUGAc -5'
16440 3' -50.3 NC_004084.1 + 39842 0.66 0.959382
Target:  5'- --cUCGaguccaUCGGCGGCCGcggcgccgUCGAGCa- -3'
miRNA:   3'- caaAGC------AGCUGCCGGCua------AGCUUGac -5'
16440 3' -50.3 NC_004084.1 + 45640 0.66 0.955267
Target:  5'- --gUCGUCGACGGCguc-UCGGAUg- -3'
miRNA:   3'- caaAGCAGCUGCCGgcuaAGCUUGac -5'
16440 3' -50.3 NC_004084.1 + 58211 0.66 0.955267
Target:  5'- ---cCGcCGAUGGCCGug-CGGGCUc -3'
miRNA:   3'- caaaGCaGCUGCCGGCuaaGCUUGAc -5'
16440 3' -50.3 NC_004084.1 + 19017 0.66 0.950878
Target:  5'- ---aCGaCGAC-GCCGAgcUCGAACUGg -3'
miRNA:   3'- caaaGCaGCUGcCGGCUa-AGCUUGAC- -5'
16440 3' -50.3 NC_004084.1 + 17563 0.66 0.950878
Target:  5'- --gUCGaucUCGACGGCCaGUUCGGGg-- -3'
miRNA:   3'- caaAGC---AGCUGCCGGcUAAGCUUgac -5'
16440 3' -50.3 NC_004084.1 + 12028 0.66 0.946211
Target:  5'- --gUCGcCGAUcGUCGAUUCGAcCUGa -3'
miRNA:   3'- caaAGCaGCUGcCGGCUAAGCUuGAC- -5'
16440 3' -50.3 NC_004084.1 + 57647 0.67 0.930501
Target:  5'- --gUCGccUCGACGaGCCGAU-CGGcCUGg -3'
miRNA:   3'- caaAGC--AGCUGC-CGGCUAaGCUuGAC- -5'
16440 3' -50.3 NC_004084.1 + 3178 0.67 0.918588
Target:  5'- --gUCGUCGACGG-CGAggacgUGAACg- -3'
miRNA:   3'- caaAGCAGCUGCCgGCUaa---GCUUGac -5'
16440 3' -50.3 NC_004084.1 + 28090 0.67 0.918588
Target:  5'- --cUCGcCGACGGUcaaCGGUUCGGGgUGc -3'
miRNA:   3'- caaAGCaGCUGCCG---GCUAAGCUUgAC- -5'
16440 3' -50.3 NC_004084.1 + 9406 0.67 0.918588
Target:  5'- ---aCGUCGACGcgcuuGCCGAUgaCGAGCa- -3'
miRNA:   3'- caaaGCAGCUGC-----CGGCUAa-GCUUGac -5'
16440 3' -50.3 NC_004084.1 + 40681 0.67 0.912199
Target:  5'- aGUUUCG-CGGa-GCCGAggaCGAGCUGa -3'
miRNA:   3'- -CAAAGCaGCUgcCGGCUaa-GCUUGAC- -5'
16440 3' -50.3 NC_004084.1 + 19677 0.67 0.912199
Target:  5'- -gUUCGUCGACGGCauCGcgUucacCGAGCa- -3'
miRNA:   3'- caAAGCAGCUGCCG--GCuaA----GCUUGac -5'
16440 3' -50.3 NC_004084.1 + 16407 0.67 0.912199
Target:  5'- --cUCG-CGACGGCCac-UCGAGCa- -3'
miRNA:   3'- caaAGCaGCUGCCGGcuaAGCUUGac -5'
16440 3' -50.3 NC_004084.1 + 10531 0.67 0.905523
Target:  5'- ---cCGUCGACGuuGCCGAgccagCGGACg- -3'
miRNA:   3'- caaaGCAGCUGC--CGGCUaa---GCUUGac -5'
16440 3' -50.3 NC_004084.1 + 48561 0.68 0.883813
Target:  5'- --cUCGUCG-CGGUCGAggCGAAUc- -3'
miRNA:   3'- caaAGCAGCuGCCGGCUaaGCUUGac -5'
16440 3' -50.3 NC_004084.1 + 3070 0.68 0.883813
Target:  5'- --cUCGUCGACGGgCCGcucgUCGAcguGCg- -3'
miRNA:   3'- caaAGCAGCUGCC-GGCua--AGCU---UGac -5'
16440 3' -50.3 NC_004084.1 + 37577 0.68 0.87603
Target:  5'- --cUCGUCGACGaGCCGAggcacucUCGGGgaGc -3'
miRNA:   3'- caaAGCAGCUGC-CGGCUa------AGCUUgaC- -5'
16440 3' -50.3 NC_004084.1 + 21043 0.69 0.850262
Target:  5'- -gUUCGUCGaagucagGCGGCCaccgcagugcUUCGAGCUGg -3'
miRNA:   3'- caAAGCAGC-------UGCCGGcu--------AAGCUUGAC- -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.