miRNA display CGI


Results 1 - 20 of 36 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
12968 3' -57.9 NC_003387.1 + 40372 0.69 0.405903
Target:  5'- gGCCGGGGCcAAGGGCcucgacgucgGCGG--CGAg -3'
miRNA:   3'- -CGGUCCCGcUUCCCGua--------CGCCaaGCU- -5'
12968 3' -57.9 NC_003387.1 + 19439 0.66 0.544846
Target:  5'- -aCAGGGCGuuAAGGcCGUGCGGgcgCGu -3'
miRNA:   3'- cgGUCCCGC--UUCCcGUACGCCaa-GCu -5'
12968 3' -57.9 NC_003387.1 + 52057 0.66 0.576834
Target:  5'- uGCCGGGGCuGggGGaGCAcaucgUGCaGGcccuacUCGAc -3'
miRNA:   3'- -CGGUCCCG-CuuCC-CGU-----ACG-CCa-----AGCU- -5'
12968 3' -57.9 NC_003387.1 + 38736 1.11 0.000377
Target:  5'- cGCCAGGGCGAAGGGCAUGCGGUUCGAg -3'
miRNA:   3'- -CGGUCCCGCUUCCCGUACGCCAAGCU- -5'
12968 3' -57.9 NC_003387.1 + 4029 0.75 0.151861
Target:  5'- cGCCAaGcGCG-AGGGCGUGCGGUgggugCGAu -3'
miRNA:   3'- -CGGUcC-CGCuUCCCGUACGCCAa----GCU- -5'
12968 3' -57.9 NC_003387.1 + 3683 0.72 0.257115
Target:  5'- aCCgAGGcCGAGGGGC-UGCGGUUCa- -3'
miRNA:   3'- cGG-UCCcGCUUCCCGuACGCCAAGcu -5'
12968 3' -57.9 NC_003387.1 + 1826 0.72 0.257115
Target:  5'- gGCCGauauGGCGAAGGGC-UGCGGccugUUUGAg -3'
miRNA:   3'- -CGGUc---CCGCUUCCCGuACGCC----AAGCU- -5'
12968 3' -57.9 NC_003387.1 + 3606 0.7 0.342815
Target:  5'- uUCAGGGCguccuggccgagcuGAGcGGGCGUGCGGguaucgccgUCGAc -3'
miRNA:   3'- cGGUCCCG--------------CUU-CCCGUACGCCa--------AGCU- -5'
12968 3' -57.9 NC_003387.1 + 25376 0.7 0.353517
Target:  5'- gGCgAGGuCGAGGGGC-UGCGGcugcUCGAc -3'
miRNA:   3'- -CGgUCCcGCUUCCCGuACGCCa---AGCU- -5'
12968 3' -57.9 NC_003387.1 + 50894 0.66 0.534307
Target:  5'- cGUCGGGGCGucgacgucGAGGGCAuggucacgaucaUGCGGa---- -3'
miRNA:   3'- -CGGUCCCGC--------UUCCCGU------------ACGCCaagcu -5'
12968 3' -57.9 NC_003387.1 + 19622 0.67 0.513455
Target:  5'- cGCC---GCGAAGGGCGcgacggGCGGcUCGAu -3'
miRNA:   3'- -CGGuccCGCUUCCCGUa-----CGCCaAGCU- -5'
12968 3' -57.9 NC_003387.1 + 26611 0.67 0.503154
Target:  5'- cGCCucGGcGGCGAAGcuggacGGCAUGCGGgg-GAu -3'
miRNA:   3'- -CGG--UC-CCGCUUC------CCGUACGCCaagCU- -5'
12968 3' -57.9 NC_003387.1 + 26568 0.69 0.405903
Target:  5'- cGCCcuugcGGGCGGugccGGGCAUGCuGGcUCGu -3'
miRNA:   3'- -CGGu----CCCGCUu---CCCGUACG-CCaAGCu -5'
12968 3' -57.9 NC_003387.1 + 43090 0.67 0.513455
Target:  5'- aCCAGGGUGAcGGGCGccgGGUaCGAg -3'
miRNA:   3'- cGGUCCCGCUuCCCGUacgCCAaGCU- -5'
12968 3' -57.9 NC_003387.1 + 24532 0.68 0.452138
Target:  5'- cGCCAccuuGGCGAGGGGCcgaGCgaaacugucgccgGGUUCGGg -3'
miRNA:   3'- -CGGUc---CCGCUUCCCGua-CG-------------CCAAGCU- -5'
12968 3' -57.9 NC_003387.1 + 623 0.67 0.503154
Target:  5'- -gCAGGGCG-AGGGCAgcgucgccgccGCGGcagCGAc -3'
miRNA:   3'- cgGUCCCGCuUCCCGUa----------CGCCaa-GCU- -5'
12968 3' -57.9 NC_003387.1 + 22174 0.67 0.523842
Target:  5'- gGCCcaGGCG-GGGGCG-GCGGUaUCGGg -3'
miRNA:   3'- -CGGucCCGCuUCCCGUaCGCCA-AGCU- -5'
12968 3' -57.9 NC_003387.1 + 28702 0.66 0.544846
Target:  5'- aCCAGuGGCGcaAAGGGCAggcccucaaGUGGUggagCGAg -3'
miRNA:   3'- cGGUC-CCGC--UUCCCGUa--------CGCCAa---GCU- -5'
12968 3' -57.9 NC_003387.1 + 48968 0.68 0.462909
Target:  5'- aGCU--GGCGAucgugcacgcGGGCAUGCGGccgUCGAu -3'
miRNA:   3'- -CGGucCCGCUu---------CCCGUACGCCa--AGCU- -5'
12968 3' -57.9 NC_003387.1 + 25741 0.68 0.462909
Target:  5'- -gCAGGGCGAcauucucGGCAUGauGUUCGGc -3'
miRNA:   3'- cgGUCCCGCUuc-----CCGUACgcCAAGCU- -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.