miRNA display CGI


Results 1 - 20 of 39 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
23808 3' -54.4 NC_005261.1 + 82670 0.66 0.945734
Target:  5'- uGAGCGCC-UCGAGccgcucgUCGGGCgccACCGc -3'
miRNA:   3'- -CUUGCGGcAGCUCa------AGCUCGac-UGGU- -5'
23808 3' -54.4 NC_005261.1 + 121132 0.66 0.941148
Target:  5'- aGGCGCgGgcgCGAGcgCGAGUagGACCGg -3'
miRNA:   3'- cUUGCGgCa--GCUCaaGCUCGa-CUGGU- -5'
23808 3' -54.4 NC_005261.1 + 85562 0.66 0.936317
Target:  5'- cGGCGCCG-CGAgGUUCGGcGCcgcGACCGc -3'
miRNA:   3'- cUUGCGGCaGCU-CAAGCU-CGa--CUGGU- -5'
23808 3' -54.4 NC_005261.1 + 73230 0.66 0.936317
Target:  5'- cGGugGCCG-CGAGcgCGAGCaGGuCCu -3'
miRNA:   3'- -CUugCGGCaGCUCaaGCUCGaCU-GGu -5'
23808 3' -54.4 NC_005261.1 + 30889 0.66 0.936317
Target:  5'- --cUGCCGccCGAGcUCGGGCUGggGCCGc -3'
miRNA:   3'- cuuGCGGCa-GCUCaAGCUCGAC--UGGU- -5'
23808 3' -54.4 NC_005261.1 + 87127 0.66 0.931242
Target:  5'- aAGgGCCG-CGGGUacgCGAGCUGcucGCCGa -3'
miRNA:   3'- cUUgCGGCaGCUCAa--GCUCGAC---UGGU- -5'
23808 3' -54.4 NC_005261.1 + 31443 0.66 0.929671
Target:  5'- cGGCGCCGcccggCGAGgaCGAGCgccggcggccugagUGGCCGc -3'
miRNA:   3'- cUUGCGGCa----GCUCaaGCUCG--------------ACUGGU- -5'
23808 3' -54.4 NC_005261.1 + 105527 0.66 0.92592
Target:  5'- -cGCGCCcgcccacCGGGacUCGGGCUGGCCGc -3'
miRNA:   3'- cuUGCGGca-----GCUCa-AGCUCGACUGGU- -5'
23808 3' -54.4 NC_005261.1 + 44968 0.66 0.92592
Target:  5'- gGGACGCgCG-CGAGggccCGGGCgGGCCGc -3'
miRNA:   3'- -CUUGCG-GCaGCUCaa--GCUCGaCUGGU- -5'
23808 3' -54.4 NC_005261.1 + 87410 0.67 0.920351
Target:  5'- cGGCGCCGUCGA---CGGGCgcGCCGg -3'
miRNA:   3'- cUUGCGGCAGCUcaaGCUCGacUGGU- -5'
23808 3' -54.4 NC_005261.1 + 76651 0.67 0.920351
Target:  5'- cGAGCGCCuG-CGAGgUCGGcgccguGCUGGCCc -3'
miRNA:   3'- -CUUGCGG-CaGCUCaAGCU------CGACUGGu -5'
23808 3' -54.4 NC_005261.1 + 58560 0.67 0.919208
Target:  5'- -uGCGCCGUCGuGgccgcgagcggCGAGCgcgaGACCu -3'
miRNA:   3'- cuUGCGGCAGCuCaa---------GCUCGa---CUGGu -5'
23808 3' -54.4 NC_005261.1 + 22709 0.67 0.908479
Target:  5'- cGAgGCCGUCGAG---GAGCcggagGACCAg -3'
miRNA:   3'- cUUgCGGCAGCUCaagCUCGa----CUGGU- -5'
23808 3' -54.4 NC_005261.1 + 44870 0.67 0.895635
Target:  5'- aGAGCGCCGccgCGAGcgccgCGGGgaUGGCCGg -3'
miRNA:   3'- -CUUGCGGCa--GCUCaa---GCUCg-ACUGGU- -5'
23808 3' -54.4 NC_005261.1 + 68098 0.68 0.888856
Target:  5'- gGGAgGCCGUgaAGUUCGGGCUGgaGCUg -3'
miRNA:   3'- -CUUgCGGCAgcUCAAGCUCGAC--UGGu -5'
23808 3' -54.4 NC_005261.1 + 121769 0.68 0.887473
Target:  5'- cGAGCGCgGUgGGGUggccgcggccggCGGGCUGGgCAg -3'
miRNA:   3'- -CUUGCGgCAgCUCAa-----------GCUCGACUgGU- -5'
23808 3' -54.4 NC_005261.1 + 81201 0.68 0.881845
Target:  5'- ---gGCCGcgCGGGcgCGAGCcgGACCAc -3'
miRNA:   3'- cuugCGGCa-GCUCaaGCUCGa-CUGGU- -5'
23808 3' -54.4 NC_005261.1 + 4528 0.68 0.874605
Target:  5'- cGGGCGCCGcggCGAGggcgcCGGGCccUGGCCu -3'
miRNA:   3'- -CUUGCGGCa--GCUCaa---GCUCG--ACUGGu -5'
23808 3' -54.4 NC_005261.1 + 137032 0.68 0.867141
Target:  5'- aGAACGgCGUCG-GUggaGGGCgGACCGu -3'
miRNA:   3'- -CUUGCgGCAGCuCAag-CUCGaCUGGU- -5'
23808 3' -54.4 NC_005261.1 + 118922 0.69 0.835172
Target:  5'- cGGCGCCG-CGGGcgCGgcgccgcgcGGCUGGCCGc -3'
miRNA:   3'- cUUGCGGCaGCUCaaGC---------UCGACUGGU- -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.