miRNA display CGI


Results 1 - 20 of 32 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
19281 3' -60.6 NC_004685.1 + 3894 0.67 0.42699
Target:  5'- uCCGGUCGAGCACCguc-UGGCcuucGGGUg -3'
miRNA:   3'- cGGCCGGCUCGUGGaccaACCG----CUCA- -5'
19281 3' -60.6 NC_004685.1 + 4176 0.72 0.225764
Target:  5'- cCCGGCCGAGCcuGCCcgacgguuacccggUGGUggcgugcGGCGAGg -3'
miRNA:   3'- cGGCCGGCUCG--UGG--------------ACCAa------CCGCUCa -5'
19281 3' -60.6 NC_004685.1 + 5416 0.68 0.366308
Target:  5'- aGCUGGCCGAGgaggacaGCCUGGccagGGUGGa- -3'
miRNA:   3'- -CGGCCGGCUCg------UGGACCaa--CCGCUca -5'
19281 3' -60.6 NC_004685.1 + 6546 0.66 0.483476
Target:  5'- -aCGGCCGAGCugauCCUGGaggugcUGGCa--- -3'
miRNA:   3'- cgGCCGGCUCGu---GGACCa-----ACCGcuca -5'
19281 3' -60.6 NC_004685.1 + 9970 0.68 0.400251
Target:  5'- gGCUGGCCGAcGaCGCCgug--GGCGAGa -3'
miRNA:   3'- -CGGCCGGCU-C-GUGGaccaaCCGCUCa -5'
19281 3' -60.6 NC_004685.1 + 11372 0.66 0.523057
Target:  5'- uGCCGGCCGGGCcgACCaaGGUccGCGuGc -3'
miRNA:   3'- -CGGCCGGCUCG--UGGa-CCAacCGCuCa -5'
19281 3' -60.6 NC_004685.1 + 11389 0.69 0.350096
Target:  5'- gGCUGGCgcgaauCGAGCGCCgGGUUucGGCG-GUg -3'
miRNA:   3'- -CGGCCG------GCUCGUGGaCCAA--CCGCuCA- -5'
19281 3' -60.6 NC_004685.1 + 12798 0.69 0.319227
Target:  5'- cGCCcaGGCCGAGCGgCUGGcgGGCc--- -3'
miRNA:   3'- -CGG--CCGGCUCGUgGACCaaCCGcuca -5'
19281 3' -60.6 NC_004685.1 + 13630 0.68 0.358138
Target:  5'- -gCGGCCGAGCACgaCUGGgugcgcugGGCGuGc -3'
miRNA:   3'- cgGCCGGCUCGUG--GACCaa------CCGCuCa -5'
19281 3' -60.6 NC_004685.1 + 14463 0.67 0.42699
Target:  5'- aGUgGGCCGAGCgaggcuACgaGGUgcUGGaCGAGUa -3'
miRNA:   3'- -CGgCCGGCUCG------UGgaCCA--ACC-GCUCA- -5'
19281 3' -60.6 NC_004685.1 + 15308 0.69 0.334401
Target:  5'- cGCaGGCCGAGUGCUUGGaggagcUGGCGuGa -3'
miRNA:   3'- -CGgCCGGCUCGUGGACCa-----ACCGCuCa -5'
19281 3' -60.6 NC_004685.1 + 19976 0.66 0.503097
Target:  5'- uGUCGGCC-AGCAUCgGGUuccUGGUGAa- -3'
miRNA:   3'- -CGGCCGGcUCGUGGaCCA---ACCGCUca -5'
19281 3' -60.6 NC_004685.1 + 23882 0.72 0.221843
Target:  5'- gGCCGGCCGA-CGCCgagacguucgUGGUgaaguggcugGGCGAGg -3'
miRNA:   3'- -CGGCCGGCUcGUGG----------ACCAa---------CCGCUCa -5'
19281 3' -60.6 NC_004685.1 + 25621 0.73 0.190568
Target:  5'- cCCGGCCGAccgcaggucGCGgUUGGUUGGCGuGg -3'
miRNA:   3'- cGGCCGGCU---------CGUgGACCAACCGCuCa -5'
19281 3' -60.6 NC_004685.1 + 30206 0.66 0.473804
Target:  5'- cGUCGGCCuGGGCGCCgcGGccaucugGGCGAc- -3'
miRNA:   3'- -CGGCCGG-CUCGUGGa-CCaa-----CCGCUca -5'
19281 3' -60.6 NC_004685.1 + 32271 0.69 0.350096
Target:  5'- cGCCGGUggcgCGGGCGguCCUGGUggcgcGGCGAc- -3'
miRNA:   3'- -CGGCCG----GCUCGU--GGACCAa----CCGCUca -5'
19281 3' -60.6 NC_004685.1 + 32739 0.69 0.334401
Target:  5'- aGCCGaGCCGGGUgguggaccggccGCCaGGUUGGUGGc- -3'
miRNA:   3'- -CGGC-CGGCUCG------------UGGaCCAACCGCUca -5'
19281 3' -60.6 NC_004685.1 + 34582 0.7 0.283577
Target:  5'- gGCCGacgcuGCCGAGCGCCUGGc---CGAGg -3'
miRNA:   3'- -CGGC-----CGGCUCGUGGACCaaccGCUCa -5'
19281 3' -60.6 NC_004685.1 + 36389 0.66 0.513037
Target:  5'- cGgCGGCCuGGGCAacuuccccgcCCUGGUgcgcGGCGAu- -3'
miRNA:   3'- -CgGCCGG-CUCGU----------GGACCAa---CCGCUca -5'
19281 3' -60.6 NC_004685.1 + 36593 0.68 0.366308
Target:  5'- gGCCGacGCCGAGgACCUGGcgGGUGc-- -3'
miRNA:   3'- -CGGC--CGGCUCgUGGACCaaCCGCuca -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.