miRNA display CGI


Results 1 - 17 of 17 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
12241 3' -55.6 NC_003309.1 + 46982 0.66 0.687337
Target:  5'- uGUCGAcgcucggauagauGUGCgu--GCCGUcgUCGUGCGAa -3'
miRNA:   3'- -CAGCU-------------UACGacuuCGGCG--AGCGCGCU- -5'
12241 3' -55.6 NC_003309.1 + 18434 0.66 0.677469
Target:  5'- cGUCGGAUcGUUGuAGCUGacgaGCGCGAc -3'
miRNA:   3'- -CAGCUUA-CGACuUCGGCgag-CGCGCU- -5'
12241 3' -55.6 NC_003309.1 + 23595 0.66 0.666463
Target:  5'- -cCGGAUggucGUUGAGGCUGacgaUCGCGCGc -3'
miRNA:   3'- caGCUUA----CGACUUCGGCg---AGCGCGCu -5'
12241 3' -55.6 NC_003309.1 + 10696 0.66 0.644365
Target:  5'- cUCGAGcuccUGCUGcgcggcGGCCGuCUCGCggGCGAu -3'
miRNA:   3'- cAGCUU----ACGACu-----UCGGC-GAGCG--CGCU- -5'
12241 3' -55.6 NC_003309.1 + 506 0.66 0.644365
Target:  5'- gGUCGAGccccagcauUGCgccGAAGCCGCcauUUGCGCc- -3'
miRNA:   3'- -CAGCUU---------ACGa--CUUCGGCG---AGCGCGcu -5'
12241 3' -55.6 NC_003309.1 + 9714 0.67 0.633293
Target:  5'- cGUCGA--GCgGuuGCCGUgugucgCGCGCGAu -3'
miRNA:   3'- -CAGCUuaCGaCuuCGGCGa-----GCGCGCU- -5'
12241 3' -55.6 NC_003309.1 + 31971 0.67 0.611157
Target:  5'- ------gGCgcAAGCCGCUCGCGUGGa -3'
miRNA:   3'- cagcuuaCGacUUCGGCGAGCGCGCU- -5'
12241 3' -55.6 NC_003309.1 + 44949 0.67 0.611157
Target:  5'- gGUCGGAUGU---AGCacuucaagCGCUCGUGCGGc -3'
miRNA:   3'- -CAGCUUACGacuUCG--------GCGAGCGCGCU- -5'
12241 3' -55.6 NC_003309.1 + 12514 0.67 0.578113
Target:  5'- cGUCGAcgGC-GAAacucGUCGCUCaCGCGAu -3'
miRNA:   3'- -CAGCUuaCGaCUU----CGGCGAGcGCGCU- -5'
12241 3' -55.6 NC_003309.1 + 26503 0.68 0.55521
Target:  5'- -cUGGcUGCUgcacgcaGAGGCUugGCUCGCGCGAa -3'
miRNA:   3'- caGCUuACGA-------CUUCGG--CGAGCGCGCU- -5'
12241 3' -55.6 NC_003309.1 + 50252 0.69 0.492534
Target:  5'- -gCGAAaGCUGAucGUCGCgcgCGCGUGAu -3'
miRNA:   3'- caGCUUaCGACUu-CGGCGa--GCGCGCU- -5'
12241 3' -55.6 NC_003309.1 + 45036 0.69 0.48943
Target:  5'- cUCGGucuucagguacugcGUGCaGAAcuGCCGCUUGCGUGAu -3'
miRNA:   3'- cAGCU--------------UACGaCUU--CGGCGAGCGCGCU- -5'
12241 3' -55.6 NC_003309.1 + 12649 0.69 0.482223
Target:  5'- -gCGAGccgcUGCUcGAgauAGCCGCgcucgCGCGCGAc -3'
miRNA:   3'- caGCUU----ACGA-CU---UCGGCGa----GCGCGCU- -5'
12241 3' -55.6 NC_003309.1 + 12004 0.69 0.459918
Target:  5'- cGUCGAAagccUGCUGcccgcgcgcggcAGCCGCggCGCGCGc -3'
miRNA:   3'- -CAGCUU----ACGACu-----------UCGGCGa-GCGCGCu -5'
12241 3' -55.6 NC_003309.1 + 48713 0.7 0.451944
Target:  5'- gGUCGAcUGCcaauGCCGCgUGCGCGAu -3'
miRNA:   3'- -CAGCUuACGacuuCGGCGaGCGCGCU- -5'
12241 3' -55.6 NC_003309.1 + 16781 0.7 0.413251
Target:  5'- cGUUGAAcacgGCgaacgUGAGGCCGCcgUCGCGCGc -3'
miRNA:   3'- -CAGCUUa---CG-----ACUUCGGCG--AGCGCGCu -5'
12241 3' -55.6 NC_003309.1 + 45263 0.73 0.310314
Target:  5'- gGUCGAAUGCc--GGCCGC-CGCGUGc -3'
miRNA:   3'- -CAGCUUACGacuUCGGCGaGCGCGCu -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.