miRNA display CGI


Results 1 - 20 of 29 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
26427 3' -55.1 NC_005345.2 + 1334 0.66 0.737882
Target:  5'- gGUCcuccagGGCGAGGCGCUgucgaaGUGGGuUGAUGu -3'
miRNA:   3'- gCAG------CCGCUCUGUGAg-----CACUC-GCUAC- -5'
26427 3' -55.1 NC_005345.2 + 13267 0.66 0.737882
Target:  5'- --cCGGCGAGcaGCUCGUcGGCGAc- -3'
miRNA:   3'- gcaGCCGCUCugUGAGCAcUCGCUac -5'
26427 3' -55.1 NC_005345.2 + 22249 0.66 0.737882
Target:  5'- uCGaCGGCGAGGUGCUgcCGUGGGCGc-- -3'
miRNA:   3'- -GCaGCCGCUCUGUGA--GCACUCGCuac -5'
26427 3' -55.1 NC_005345.2 + 37337 0.66 0.716674
Target:  5'- --aCGGCGAuGACccguCUCG-GAGCGAg- -3'
miRNA:   3'- gcaGCCGCU-CUGu---GAGCaCUCGCUac -5'
26427 3' -55.1 NC_005345.2 + 7325 0.66 0.716674
Target:  5'- aGUCGGCG-GACGCcgagUCGcacGCGGUGu -3'
miRNA:   3'- gCAGCCGCuCUGUG----AGCacuCGCUAC- -5'
26427 3' -55.1 NC_005345.2 + 38409 0.66 0.705938
Target:  5'- gCGUCGGCGAcGACAUc---GAGCGcgGc -3'
miRNA:   3'- -GCAGCCGCU-CUGUGagcaCUCGCuaC- -5'
26427 3' -55.1 NC_005345.2 + 10074 0.66 0.695131
Target:  5'- aCGcCGuCGAGGCGCUCGUcauccgggccGAGCGGc- -3'
miRNA:   3'- -GCaGCcGCUCUGUGAGCA----------CUCGCUac -5'
26427 3' -55.1 NC_005345.2 + 19895 0.66 0.695131
Target:  5'- uGUUgcgGGCGAGccgcuGCGCaUCGcGGGCGAUGa -3'
miRNA:   3'- gCAG---CCGCUC-----UGUG-AGCaCUCGCUAC- -5'
26427 3' -55.1 NC_005345.2 + 4124 0.66 0.688616
Target:  5'- gGUUGGCGuucgagcggcugcucGcGGCGCUCGUcGAGCGGg- -3'
miRNA:   3'- gCAGCCGC---------------U-CUGUGAGCA-CUCGCUac -5'
26427 3' -55.1 NC_005345.2 + 25532 0.66 0.684262
Target:  5'- gCGUaagCGGCaGGGGCAgCUCGacGAGUGGUGg -3'
miRNA:   3'- -GCA---GCCG-CUCUGU-GAGCa-CUCGCUAC- -5'
26427 3' -55.1 NC_005345.2 + 28132 0.66 0.680992
Target:  5'- uCGgCGGCGAGGgGguaugcgaaagcccCUCGgGAGCGGUGc -3'
miRNA:   3'- -GCaGCCGCUCUgU--------------GAGCaCUCGCUAC- -5'
26427 3' -55.1 NC_005345.2 + 36838 0.67 0.673344
Target:  5'- cCGaUCGGCGccgcgcacucgGGGCACUCGaucccGAGCGGa- -3'
miRNA:   3'- -GC-AGCCGC-----------UCUGUGAGCa----CUCGCUac -5'
26427 3' -55.1 NC_005345.2 + 47467 0.67 0.673344
Target:  5'- uGUCGGCGA--C-CU-GUGGGCGAUGc -3'
miRNA:   3'- gCAGCCGCUcuGuGAgCACUCGCUAC- -5'
26427 3' -55.1 NC_005345.2 + 17148 0.67 0.662386
Target:  5'- aCGUUGGuCGGGGCGgUCGUGccgacgggGGCGGc- -3'
miRNA:   3'- -GCAGCC-GCUCUGUgAGCAC--------UCGCUac -5'
26427 3' -55.1 NC_005345.2 + 29530 0.68 0.618378
Target:  5'- uCGUCGGCgucGAGGUACUCGgGGGCGu-- -3'
miRNA:   3'- -GCAGCCG---CUCUGUGAGCaCUCGCuac -5'
26427 3' -55.1 NC_005345.2 + 28713 0.68 0.606283
Target:  5'- gCGUCGGacggaacCGAGACGCUCGUcGGGUu--- -3'
miRNA:   3'- -GCAGCC-------GCUCUGUGAGCA-CUCGcuac -5'
26427 3' -55.1 NC_005345.2 + 5585 0.7 0.479413
Target:  5'- aGUUGGCGAGGCGgUCGgcGAGCu--- -3'
miRNA:   3'- gCAGCCGCUCUGUgAGCa-CUCGcuac -5'
26427 3' -55.1 NC_005345.2 + 3079 0.7 0.459286
Target:  5'- uGUCGGCGAgGACACUgG-GAaUGAUGg -3'
miRNA:   3'- gCAGCCGCU-CUGUGAgCaCUcGCUAC- -5'
26427 3' -55.1 NC_005345.2 + 12692 0.7 0.459286
Target:  5'- --aCGGCGAGagugGCGgUgGUGGGCGAUGc -3'
miRNA:   3'- gcaGCCGCUC----UGUgAgCACUCGCUAC- -5'
26427 3' -55.1 NC_005345.2 + 18936 0.71 0.439618
Target:  5'- gCGUCGGCGucGACGuugauCUCGUGgcGGCGAg- -3'
miRNA:   3'- -GCAGCCGCu-CUGU-----GAGCAC--UCGCUac -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.