miRNA display CGI


Results 1 - 20 of 72 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
19010 3' -63.7 NC_004684.1 + 56910 0.66 0.345116
Target:  5'- aGGCCgCCAUcGuGuCCUCCugccUGGAgCGCGCc -3'
miRNA:   3'- -CCGG-GGUA-C-C-GGAGG----ACCUgGCGCGc -5'
19010 3' -63.7 NC_004684.1 + 753 0.68 0.267751
Target:  5'- cGCCCUGgcGGCgCUCCUGGAcaCCGC-CGa -3'
miRNA:   3'- cCGGGGUa-CCG-GAGGACCU--GGCGcGC- -5'
19010 3' -63.7 NC_004684.1 + 58622 0.68 0.287361
Target:  5'- cGG-CCCGUGGCgg-CUGGuGCCGCGCu -3'
miRNA:   3'- -CCgGGGUACCGgagGACC-UGGCGCGc -5'
19010 3' -63.7 NC_004684.1 + 65751 0.67 0.300356
Target:  5'- uGGCCUCGcgggcguUGGCCgccgcgcgCCggUGGGCgCGCGCa -3'
miRNA:   3'- -CCGGGGU-------ACCGGa-------GG--ACCUG-GCGCGc -5'
19010 3' -63.7 NC_004684.1 + 60292 0.67 0.307375
Target:  5'- uGGCCCgGUccucggcGGCCUCCaGGGCCucggcaauGCGUu -3'
miRNA:   3'- -CCGGGgUA-------CCGGAGGaCCUGG--------CGCGc -5'
19010 3' -63.7 NC_004684.1 + 42215 0.67 0.308084
Target:  5'- uGGCCgaCGUGGCCgCCggugucGGcACCGgCGCGa -3'
miRNA:   3'- -CCGGg-GUACCGGaGGa-----CC-UGGC-GCGC- -5'
19010 3' -63.7 NC_004684.1 + 31193 0.67 0.322523
Target:  5'- aGGCCUCGUagagGGCCUggaagacgaCCUGG-CCGaCGCc -3'
miRNA:   3'- -CCGGGGUA----CCGGA---------GGACCuGGC-GCGc -5'
19010 3' -63.7 NC_004684.1 + 7563 0.67 0.329929
Target:  5'- cGGCCCCggGUGGCgCUggugcggCUGGugCGCgGCa -3'
miRNA:   3'- -CCGGGG--UACCG-GAg------GACCugGCG-CGc -5'
19010 3' -63.7 NC_004684.1 + 11782 0.67 0.329929
Target:  5'- uGGCCCCGUgGGCCgaCCaGGccACCguggagaaggGCGCGa -3'
miRNA:   3'- -CCGGGGUA-CCGGa-GGaCC--UGG----------CGCGC- -5'
19010 3' -63.7 NC_004684.1 + 5939 0.68 0.267751
Target:  5'- uGGCCaCCGggcGGUCcaaCCUGG-CCGCGCc -3'
miRNA:   3'- -CCGG-GGUa--CCGGa--GGACCuGGCGCGc -5'
19010 3' -63.7 NC_004684.1 + 12730 0.68 0.260836
Target:  5'- aGGCCguggaCCA-GGCCgaggucgacgcccUCUUGGcCCGCGCGg -3'
miRNA:   3'- -CCGG-----GGUaCCGG-------------AGGACCuGGCGCGC- -5'
19010 3' -63.7 NC_004684.1 + 65581 0.69 0.249236
Target:  5'- aGCCgCCAUGGCCUCggucaUGaGCCGCacgGCGg -3'
miRNA:   3'- cCGG-GGUACCGGAGg----ACcUGGCG---CGC- -5'
19010 3' -63.7 NC_004684.1 + 23686 0.74 0.110962
Target:  5'- cGGCCCggaccagagCGUGGCCUCCaaccUGGGCgGCgGCGc -3'
miRNA:   3'- -CCGGG---------GUACCGGAGG----ACCUGgCG-CGC- -5'
19010 3' -63.7 NC_004684.1 + 33964 0.73 0.116929
Target:  5'- cGGCCCCAUGGCCgUC-GGACCuacCGCc -3'
miRNA:   3'- -CCGGGGUACCGGaGGaCCUGGc--GCGc -5'
19010 3' -63.7 NC_004684.1 + 28066 0.73 0.120024
Target:  5'- cGGCCCCggcgguGUGGCCgggCC---GCCGCGCGa -3'
miRNA:   3'- -CCGGGG------UACCGGa--GGaccUGGCGCGC- -5'
19010 3' -63.7 NC_004684.1 + 51172 0.71 0.15943
Target:  5'- uGG-CCgAUGcGCCgggCCaUGGACCGCGCGc -3'
miRNA:   3'- -CCgGGgUAC-CGGa--GG-ACCUGGCGCGC- -5'
19010 3' -63.7 NC_004684.1 + 16591 0.71 0.167748
Target:  5'- cGCCgCCAgcgucugcuggUGGCCUCCUGcaugcucACCGCGCu -3'
miRNA:   3'- cCGG-GGU-----------ACCGGAGGACc------UGGCGCGc -5'
19010 3' -63.7 NC_004684.1 + 23563 0.7 0.185556
Target:  5'- cGGCCUgGacaGCCUgCcGGGCCGCGCGa -3'
miRNA:   3'- -CCGGGgUac-CGGAgGaCCUGGCGCGC- -5'
19010 3' -63.7 NC_004684.1 + 58441 0.7 0.210144
Target:  5'- cGGCCCCGUGccggacccgacuGCC-CgCUGaGGCCaGCGCGa -3'
miRNA:   3'- -CCGGGGUAC------------CGGaG-GAC-CUGG-CGCGC- -5'
19010 3' -63.7 NC_004684.1 + 22696 0.69 0.236914
Target:  5'- uGGCCCCggcggcgcaggacGUGGCCaaggCCgUGGcugGCaCGCGCGa -3'
miRNA:   3'- -CCGGGG-------------UACCGGa---GG-ACC---UG-GCGCGC- -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.