miRNA display CGI


Results 1 - 20 of 21 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
11898 3' -60.8 NC_003266.2 + 16932 0.66 0.329775
Target:  5'- aGCGCgugccgcgguaGCCCGGCGUgGggaugauggaaGgAUGCAGCGc -3'
miRNA:   3'- -CGCG-----------UGGGCCGCAgCa----------CgUGCGUCGU- -5'
11898 3' -60.8 NC_003266.2 + 15864 0.66 0.329775
Target:  5'- cGCGCgGCCaCGGCGgCG-GCA-GCGGCc -3'
miRNA:   3'- -CGCG-UGG-GCCGCaGCaCGUgCGUCGu -5'
11898 3' -60.8 NC_003266.2 + 15846 0.66 0.321862
Target:  5'- -aGCaugGCCCuGCGUccCGUGCgccuggcccuGCGCAGCAa -3'
miRNA:   3'- cgCG---UGGGcCGCA--GCACG----------UGCGUCGU- -5'
11898 3' -60.8 NC_003266.2 + 13813 0.66 0.316408
Target:  5'- uGCGUACCCGGaggguccuccucccuCGUacgagagCGUG-AUGCAGCAg -3'
miRNA:   3'- -CGCGUGGGCC---------------GCA-------GCACgUGCGUCGU- -5'
11898 3' -60.8 NC_003266.2 + 11248 0.66 0.305709
Target:  5'- aCGCcgugaccagguugGCCgCGGCcaCGUGCGCGCGcGCAg -3'
miRNA:   3'- cGCG-------------UGG-GCCGcaGCACGUGCGU-CGU- -5'
11898 3' -60.8 NC_003266.2 + 18324 0.66 0.304203
Target:  5'- aGCGUccugUCCGGCGaUGUGCAUguacgcccacugggGCAGCAu -3'
miRNA:   3'- -CGCGu---GGGCCGCaGCACGUG--------------CGUCGU- -5'
11898 3' -60.8 NC_003266.2 + 10120 0.67 0.291636
Target:  5'- gGgGCGCCgGGCGcuagguccUCGaGCAUGguGCGg -3'
miRNA:   3'- -CgCGUGGgCCGC--------AGCaCGUGCguCGU- -5'
11898 3' -60.8 NC_003266.2 + 23198 0.67 0.270456
Target:  5'- uCGCgGCCCGGCGggugGCugGCAGa- -3'
miRNA:   3'- cGCG-UGGGCCGCagcaCGugCGUCgu -5'
11898 3' -60.8 NC_003266.2 + 16283 0.67 0.263676
Target:  5'- uCGCGCCUGGCGagCGguccgGCACGacauccaAGCGc -3'
miRNA:   3'- cGCGUGGGCCGCa-GCa----CGUGCg------UCGU- -5'
11898 3' -60.8 NC_003266.2 + 15498 0.67 0.257035
Target:  5'- aCGCAacacCCCGuGCG-CGUGCGCG-GGCAc -3'
miRNA:   3'- cGCGU----GGGC-CGCaGCACGUGCgUCGU- -5'
11898 3' -60.8 NC_003266.2 + 15934 0.68 0.244165
Target:  5'- uGCGCGacgccgccaCCGGUGUgcgCGUGCcCGUGGCAc -3'
miRNA:   3'- -CGCGUg--------GGCCGCA---GCACGuGCGUCGU- -5'
11898 3' -60.8 NC_003266.2 + 5253 0.68 0.220032
Target:  5'- gGCGC-CCUGuGCGUCG-GCcAgGUAGCAa -3'
miRNA:   3'- -CGCGuGGGC-CGCAGCaCG-UgCGUCGU- -5'
11898 3' -60.8 NC_003266.2 + 9325 0.68 0.220032
Target:  5'- gGCGCGCCCGuCcUCGcggGguCGCAGCGu -3'
miRNA:   3'- -CGCGUGGGCcGcAGCa--CguGCGUCGU- -5'
11898 3' -60.8 NC_003266.2 + 19905 0.7 0.182703
Target:  5'- gGgGCACCUGGaUGUgGaaugGCACGUAGCGc -3'
miRNA:   3'- -CgCGUGGGCC-GCAgCa---CGUGCGUCGU- -5'
11898 3' -60.8 NC_003266.2 + 15718 0.7 0.182213
Target:  5'- gGCGCaucGCCCGGCGgcacCGUaGCACcaccgccaugcguGCGGCGc -3'
miRNA:   3'- -CGCG---UGGGCCGCa---GCA-CGUG-------------CGUCGU- -5'
11898 3' -60.8 NC_003266.2 + 9880 0.7 0.163979
Target:  5'- aGCGCgucgucgcugACCUGGCGcUCGUccaGC-CGCAGCGc -3'
miRNA:   3'- -CGCG----------UGGGCCGC-AGCA---CGuGCGUCGU- -5'
11898 3' -60.8 NC_003266.2 + 6536 0.7 0.159575
Target:  5'- aGCGCGCgCUGGC--CGUGCGCGaauGGCAa -3'
miRNA:   3'- -CGCGUG-GGCCGcaGCACGUGCg--UCGU- -5'
11898 3' -60.8 NC_003266.2 + 15995 0.72 0.12452
Target:  5'- cGCGCACaccgguggCGGCGUCGcGCACcCAGUAc -3'
miRNA:   3'- -CGCGUGg-------GCCGCAGCaCGUGcGUCGU- -5'
11898 3' -60.8 NC_003266.2 + 17075 0.73 0.108268
Target:  5'- aGCGCGCCCgcGGCaggGUCagagGCGCGCGGCc -3'
miRNA:   3'- -CGCGUGGG--CCG---CAGca--CGUGCGUCGu -5'
11898 3' -60.8 NC_003266.2 + 10940 0.76 0.057786
Target:  5'- gGCGCGCCUgggGGCGUCGUcGCcggaGCGGCAc -3'
miRNA:   3'- -CGCGUGGG---CCGCAGCA-CGug--CGUCGU- -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.