miRNA display CGI


Results 1 - 20 of 35 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
26318 3' -54.9 NC_005345.2 + 48843 0.69 0.524821
Target:  5'- cGCcCcUUCCGGGG-----GGCGGGGCg -3'
miRNA:   3'- -CGuGuAAGGCCCCaucauCCGCUCCG- -5'
26318 3' -54.9 NC_005345.2 + 48355 0.67 0.623104
Target:  5'- aCACA--CCGGucuccGGUG--GGGCGAGGCg -3'
miRNA:   3'- cGUGUaaGGCC-----CCAUcaUCCGCUCCG- -5'
26318 3' -54.9 NC_005345.2 + 45468 0.69 0.546277
Target:  5'- -gACGgcggCCGGGGUGGgcaugucGGCGaAGGUg -3'
miRNA:   3'- cgUGUaa--GGCCCCAUCau-----CCGC-UCCG- -5'
26318 3' -54.9 NC_005345.2 + 42076 0.66 0.689353
Target:  5'- uGCAC-UUCCGGGccucggccgcGUAGUccGGCcGGGCc -3'
miRNA:   3'- -CGUGuAAGGCCC----------CAUCAu-CCGcUCCG- -5'
26318 3' -54.9 NC_005345.2 + 39033 0.71 0.395263
Target:  5'- uGCGCGUcUCCGGGaaccggccGGUGGGCGcuacgcAGGCg -3'
miRNA:   3'- -CGUGUA-AGGCCCca------UCAUCCGC------UCCG- -5'
26318 3' -54.9 NC_005345.2 + 36201 0.69 0.513156
Target:  5'- uGCGCGUcggacaCGGGGUaccucuucugucgGGUacGGGCGAGGg -3'
miRNA:   3'- -CGUGUAag----GCCCCA-------------UCA--UCCGCUCCg -5'
26318 3' -54.9 NC_005345.2 + 36068 0.67 0.645264
Target:  5'- cGCGCAggucCCGGGGaAGaugcucGGCG-GGCu -3'
miRNA:   3'- -CGUGUaa--GGCCCCaUCau----CCGCuCCG- -5'
26318 3' -54.9 NC_005345.2 + 35090 0.79 0.136072
Target:  5'- uGCAgGUUCuCGGcGGUGGUgcGGGCGuGGCg -3'
miRNA:   3'- -CGUgUAAG-GCC-CCAUCA--UCCGCuCCG- -5'
26318 3' -54.9 NC_005345.2 + 34896 0.71 0.413859
Target:  5'- aCACGUUCCGGGGgaucGUgcAGGCagcguGGGCc -3'
miRNA:   3'- cGUGUAAGGCCCCau--CA--UCCGc----UCCG- -5'
26318 3' -54.9 NC_005345.2 + 33703 0.68 0.612031
Target:  5'- -aGCGgcUCGGGGccGUcgcGGGCGAGGUg -3'
miRNA:   3'- cgUGUaaGGCCCCauCA---UCCGCUCCG- -5'
26318 3' -54.9 NC_005345.2 + 33360 0.7 0.452615
Target:  5'- gGCGCGaga-GGGGUGG-GGGCGGuGGCg -3'
miRNA:   3'- -CGUGUaaggCCCCAUCaUCCGCU-CCG- -5'
26318 3' -54.9 NC_005345.2 + 32991 0.78 0.152103
Target:  5'- gGCGCAggcggCCGGGGUGGcggGGGCGucgacgaucGGGCu -3'
miRNA:   3'- -CGUGUaa---GGCCCCAUCa--UCCGC---------UCCG- -5'
26318 3' -54.9 NC_005345.2 + 32810 0.72 0.367528
Target:  5'- gGCGCGUUCCGcgaggcacucGGGaagcAGUGGGCcgaguucGAGGCg -3'
miRNA:   3'- -CGUGUAAGGC----------CCCa---UCAUCCG-------CUCCG- -5'
26318 3' -54.9 NC_005345.2 + 31448 0.73 0.34116
Target:  5'- aGCGCGggugcgaggcgCCGGGGUGcgGGuGUGAGGCg -3'
miRNA:   3'- -CGUGUaa---------GGCCCCAUcaUC-CGCUCCG- -5'
26318 3' -54.9 NC_005345.2 + 31236 0.69 0.521629
Target:  5'- uGUACGgcgggUCCGGGGUcgggugcgcacucgGGUgcgcgggugcggGGGCGGGuGCg -3'
miRNA:   3'- -CGUGUa----AGGCCCCA--------------UCA------------UCCGCUC-CG- -5'
26318 3' -54.9 NC_005345.2 + 30872 0.68 0.568007
Target:  5'- cGCGCGggugcUCCGGGu--GcGGGCGAcGGCg -3'
miRNA:   3'- -CGUGUa----AGGCCCcauCaUCCGCU-CCG- -5'
26318 3' -54.9 NC_005345.2 + 29857 0.67 0.667375
Target:  5'- cGCACuuccccUUCgCGuGGaGGUGGGCGAGGa -3'
miRNA:   3'- -CGUGu-----AAG-GCcCCaUCAUCCGCUCCg -5'
26318 3' -54.9 NC_005345.2 + 28853 0.68 0.589947
Target:  5'- cCGCAgucgUCCGGGGgcucuucGGCG-GGCa -3'
miRNA:   3'- cGUGUa---AGGCCCCaucau--CCGCuCCG- -5'
26318 3' -54.9 NC_005345.2 + 28672 0.69 0.503692
Target:  5'- aCACgg-UCGGGGccacAGGCGAGGCg -3'
miRNA:   3'- cGUGuaaGGCCCCaucaUCCGCUCCG- -5'
26318 3' -54.9 NC_005345.2 + 27958 0.67 0.656331
Target:  5'- aGCGCGUgaacccgaaCGGcGGUGcgccGUcgacGGGCGGGGCg -3'
miRNA:   3'- -CGUGUAag-------GCC-CCAU----CA----UCCGCUCCG- -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.