miRNA display CGI


Results 1 - 20 of 40 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
11486 3' -54.2 NC_003085.1 + 44923 0.66 0.746611
Target:  5'- cGGGUGUAUCaaGaCCG-CAcgGGAGGUa -3'
miRNA:   3'- -UCUACGUAGcgC-GGCuGUaaCCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 10604 0.66 0.746611
Target:  5'- uGAUGCugucgccgCGCGCCGucGCAgugGGAcgacgcGGCa -3'
miRNA:   3'- uCUACGua------GCGCGGC--UGUaa-CCU------CCG- -5'
11486 3' -54.2 NC_003085.1 + 40306 0.66 0.746611
Target:  5'- ---aGCGUCGCccucuaccucGCCGGCAagGGcuGGCg -3'
miRNA:   3'- ucuaCGUAGCG----------CGGCUGUaaCCu-CCG- -5'
11486 3' -54.2 NC_003085.1 + 16795 0.66 0.746611
Target:  5'- gAGggGCGUCucuucguaGCGCCcAUAUugcgccuuguccUGGAGGCu -3'
miRNA:   3'- -UCuaCGUAG--------CGCGGcUGUA------------ACCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 45601 0.66 0.73595
Target:  5'- cGGgcGCGccgucgaCGCGCCGugGUccUGGAugGGCa -3'
miRNA:   3'- -UCuaCGUa------GCGCGGCugUA--ACCU--CCG- -5'
11486 3' -54.2 NC_003085.1 + 44205 0.66 0.73595
Target:  5'- ---cGCAcccaccaCGCGCCacccauucGCGUUGGAGGCc -3'
miRNA:   3'- ucuaCGUa------GCGCGGc-------UGUAACCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 28003 0.66 0.73595
Target:  5'- cGGAcGCGUCuGCGUcaaCGACGgcuacgUGGAcGGCg -3'
miRNA:   3'- -UCUaCGUAG-CGCG---GCUGUa-----ACCU-CCG- -5'
11486 3' -54.2 NC_003085.1 + 33074 0.66 0.725181
Target:  5'- --cUGCAUCGC-CagGACGUgcccgcGGAGGCu -3'
miRNA:   3'- ucuACGUAGCGcGg-CUGUAa-----CCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 34741 0.66 0.725181
Target:  5'- cGAUgGCAUCGCGCgGAgGUgacGGGUg -3'
miRNA:   3'- uCUA-CGUAGCGCGgCUgUAaccUCCG- -5'
11486 3' -54.2 NC_003085.1 + 20661 0.66 0.725181
Target:  5'- ---cGCGUCGCGUCGGaGUugcUGGAgcGGCu -3'
miRNA:   3'- ucuaCGUAGCGCGGCUgUA---ACCU--CCG- -5'
11486 3' -54.2 NC_003085.1 + 9900 0.66 0.725181
Target:  5'- cGGAUGCAUCcCGUCGAguacugcugguUGUUGGAGa- -3'
miRNA:   3'- -UCUACGUAGcGCGGCU-----------GUAACCUCcg -5'
11486 3' -54.2 NC_003085.1 + 39664 0.66 0.709946
Target:  5'- gAGcgGCG-CGCGCgugagcagcagcaGGCGcUGGAGGCu -3'
miRNA:   3'- -UCuaCGUaGCGCGg------------CUGUaACCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 18301 0.66 0.703367
Target:  5'- cGGUGCA-CGCcCCGGCGcUGGccguccgaaGGGCa -3'
miRNA:   3'- uCUACGUaGCGcGGCUGUaACC---------UCCG- -5'
11486 3' -54.2 NC_003085.1 + 33188 0.66 0.703367
Target:  5'- aGGA-GCGgagaUUGCGCCagaaGGCGUUGGccgAGGCa -3'
miRNA:   3'- -UCUaCGU----AGCGCGG----CUGUAACC---UCCG- -5'
11486 3' -54.2 NC_003085.1 + 10806 0.67 0.692346
Target:  5'- cGGGUGCga-GUGCC-AC--UGGAGGCg -3'
miRNA:   3'- -UCUACGuagCGCGGcUGuaACCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 38395 0.67 0.681265
Target:  5'- cGGUGCAg---GCCGAgGUUGGuGGUg -3'
miRNA:   3'- uCUACGUagcgCGGCUgUAACCuCCG- -5'
11486 3' -54.2 NC_003085.1 + 19001 0.67 0.670134
Target:  5'- cGGUGCAUCGUcggGCC--CGUUGGuagcGGCa -3'
miRNA:   3'- uCUACGUAGCG---CGGcuGUAACCu---CCG- -5'
11486 3' -54.2 NC_003085.1 + 10636 0.67 0.658967
Target:  5'- -uGUGUGggGCGCCGGCA---GAGGCa -3'
miRNA:   3'- ucUACGUagCGCGGCUGUaacCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 38123 0.67 0.658967
Target:  5'- gAGGUGCcgugaggcUCGCcgcccuGCUGGCGUUGGuGGUg -3'
miRNA:   3'- -UCUACGu-------AGCG------CGGCUGUAACCuCCG- -5'
11486 3' -54.2 NC_003085.1 + 38069 0.67 0.647774
Target:  5'- uGGUGCGUCGCGgagaCGGCAgcGcAGGUg -3'
miRNA:   3'- uCUACGUAGCGCg---GCUGUaaCcUCCG- -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.