miRNA display CGI


Results 1 - 20 of 87 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
23694 5' -59.3 NC_005261.1 + 11708 1.08 0.001496
Target:  5'- aACCGGAAGUGGGGGCGAGGGAAGAGAg -3'
miRNA:   3'- -UGGCCUUCACCCCCGCUCCCUUCUCU- -5'
23694 5' -59.3 NC_005261.1 + 15953 0.82 0.104015
Target:  5'- aGCCGGGggcgAGUGGcGGGCGGGGGAGGGc- -3'
miRNA:   3'- -UGGCCU----UCACC-CCCGCUCCCUUCUcu -5'
23694 5' -59.3 NC_005261.1 + 78465 0.81 0.109533
Target:  5'- --gGGAuGGUGGGGGCGAGGGggGAa- -3'
miRNA:   3'- uggCCU-UCACCCCCGCUCCCuuCUcu -5'
23694 5' -59.3 NC_005261.1 + 32935 0.81 0.118326
Target:  5'- -gCGGggG-GGGGGCG-GGGAGGGGAg -3'
miRNA:   3'- ugGCCuuCaCCCCCGCuCCCUUCUCU- -5'
23694 5' -59.3 NC_005261.1 + 13710 0.8 0.131075
Target:  5'- gGCUGGggGcGGGGGUGGGGGuGGGGGu -3'
miRNA:   3'- -UGGCCuuCaCCCCCGCUCCCuUCUCU- -5'
23694 5' -59.3 NC_005261.1 + 1003 0.78 0.186229
Target:  5'- -aCGGggGcgGGGGGCGGGGGgcGGGu -3'
miRNA:   3'- ugGCCuuCa-CCCCCGCUCCCuuCUCu -5'
23694 5' -59.3 NC_005261.1 + 58289 0.76 0.226246
Target:  5'- gGCCGGcgcgccgGGGGGCGcGGGGAGGGGGc -3'
miRNA:   3'- -UGGCCuuca---CCCCCGC-UCCCUUCUCU- -5'
23694 5' -59.3 NC_005261.1 + 136182 0.76 0.248864
Target:  5'- aGCgaGGAAaaGGGGGCGAGGaGAAGGGAg -3'
miRNA:   3'- -UGg-CCUUcaCCCCCGCUCC-CUUCUCU- -5'
23694 5' -59.3 NC_005261.1 + 55284 0.76 0.251225
Target:  5'- cGCCGGAGGcGGGGGCGcugaagagccggugcGGGGGgucAGGGGg -3'
miRNA:   3'- -UGGCCUUCaCCCCCGC---------------UCCCU---UCUCU- -5'
23694 5' -59.3 NC_005261.1 + 35212 0.76 0.254803
Target:  5'- uGCCGGGAGUGGcGGCugGAGGGGacccggcaggaGGAGAg -3'
miRNA:   3'- -UGGCCUUCACCcCCG--CUCCCU-----------UCUCU- -5'
23694 5' -59.3 NC_005261.1 + 26878 0.76 0.254803
Target:  5'- -gCGGggGUGGGuGGgGGGGGgcGGGGg -3'
miRNA:   3'- ugGCCuuCACCC-CCgCUCCCuuCUCU- -5'
23694 5' -59.3 NC_005261.1 + 11332 0.75 0.267029
Target:  5'- -gUGGggGUGGGGaGgGAGGGcAGGGAg -3'
miRNA:   3'- ugGCCuuCACCCC-CgCUCCCuUCUCU- -5'
23694 5' -59.3 NC_005261.1 + 27209 0.75 0.273318
Target:  5'- -gCGGAGG-GGGGGaaaGGGGGAAGGGu -3'
miRNA:   3'- ugGCCUUCaCCCCCg--CUCCCUUCUCu -5'
23694 5' -59.3 NC_005261.1 + 11794 0.75 0.273318
Target:  5'- -gCGGAGGggggaagGGGGGCgGAGGGGgaaAGAGAg -3'
miRNA:   3'- ugGCCUUCa------CCCCCG-CUCCCU---UCUCU- -5'
23694 5' -59.3 NC_005261.1 + 56007 0.75 0.273318
Target:  5'- -gCGGggGcGGGGGCG-GGGAAGAc- -3'
miRNA:   3'- ugGCCuuCaCCCCCGCuCCCUUCUcu -5'
23694 5' -59.3 NC_005261.1 + 24127 0.75 0.279725
Target:  5'- -gCGGggGUGGGGGCuGGGuGGgcGGGGc -3'
miRNA:   3'- ugGCCuuCACCCCCG-CUC-CCuuCUCU- -5'
23694 5' -59.3 NC_005261.1 + 9630 0.75 0.279725
Target:  5'- -gCGGggGUGGGGGCuGGGuGGgcGGGGc -3'
miRNA:   3'- ugGCCuuCACCCCCG-CUC-CCuuCUCU- -5'
23694 5' -59.3 NC_005261.1 + 24289 0.74 0.312846
Target:  5'- -gUGGggGUGGGGGgccaggaugagggUGGGGGggGGGGc -3'
miRNA:   3'- ugGCCuuCACCCCC-------------GCUCCCuuCUCU- -5'
23694 5' -59.3 NC_005261.1 + 129495 0.74 0.313553
Target:  5'- cACC-GAGG-GGGGGaGGGGGAAGGGAa -3'
miRNA:   3'- -UGGcCUUCaCCCCCgCUCCCUUCUCU- -5'
23694 5' -59.3 NC_005261.1 + 32992 0.74 0.313553
Target:  5'- -gCGGAGGaGGGGGCcgaccGGGGAAGGGGg -3'
miRNA:   3'- ugGCCUUCaCCCCCGc----UCCCUUCUCU- -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.