miRNA display CGI


Results 1 - 20 of 41 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
2907 3' -59.8 NC_001493.1 + 2975 0.73 0.34522
Target:  5'- gAGUCCGa-GGUCcGCACCGACCCGc -3'
miRNA:   3'- gUCGGGUggCCAGaCGUGGUUGGGCu -5'
2907 3' -59.8 NC_001493.1 + 21202 0.67 0.648599
Target:  5'- cCAGUCCcggAUCGGUUagUGCACaagGCCCGAc -3'
miRNA:   3'- -GUCGGG---UGGCCAG--ACGUGgu-UGGGCU- -5'
2907 3' -59.8 NC_001493.1 + 110337 0.67 0.6687
Target:  5'- gCGGCCCAUCGaGUUUcacuccggGCGCgGGCUCGAc -3'
miRNA:   3'- -GUCGGGUGGC-CAGA--------CGUGgUUGGGCU- -5'
2907 3' -59.8 NC_001493.1 + 93657 0.67 0.6687
Target:  5'- gCGGCCCugCaGGUC-GCGCCcg-CCGAu -3'
miRNA:   3'- -GUCGGGugG-CCAGaCGUGGuugGGCU- -5'
2907 3' -59.8 NC_001493.1 + 118529 0.67 0.6687
Target:  5'- gAGUCCGa-GGUCcGCACCgAACCCGc -3'
miRNA:   3'- gUCGGGUggCCAGaCGUGG-UUGGGCu -5'
2907 3' -59.8 NC_001493.1 + 111353 0.67 0.678712
Target:  5'- -cGCUCACCGGUCcgGCACCcGgUgGAu -3'
miRNA:   3'- guCGGGUGGCCAGa-CGUGGuUgGgCU- -5'
2907 3' -59.8 NC_001493.1 + 77727 0.66 0.698615
Target:  5'- -cGCCCACgUGGUCauggaccGCGCCAuGCCCa- -3'
miRNA:   3'- guCGGGUG-GCCAGa------CGUGGU-UGGGcu -5'
2907 3' -59.8 NC_001493.1 + 46214 0.66 0.718302
Target:  5'- gGGCuCCGCgCGuUCaaUGCGCCGguGCCCGAg -3'
miRNA:   3'- gUCG-GGUG-GCcAG--ACGUGGU--UGGGCU- -5'
2907 3' -59.8 NC_001493.1 + 47914 0.66 0.71928
Target:  5'- uCGGaCCCGCgGGUCUGgAUCGucugggguuguacauCCCGAa -3'
miRNA:   3'- -GUC-GGGUGgCCAGACgUGGUu--------------GGGCU- -5'
2907 3' -59.8 NC_001493.1 + 120121 0.68 0.588232
Target:  5'- -cGCCC-CCGGg-UGUGCCcaAACCCGAa -3'
miRNA:   3'- guCGGGuGGCCagACGUGG--UUGGGCU- -5'
2907 3' -59.8 NC_001493.1 + 4567 0.68 0.588232
Target:  5'- -cGCCC-CCGGg-UGUGCCcaAACCCGAa -3'
miRNA:   3'- guCGGGuGGCCagACGUGG--UUGGGCU- -5'
2907 3' -59.8 NC_001493.1 + 95164 0.72 0.379796
Target:  5'- gAGCCCaagaggguugucaucACgGGUCUGC-CCAGCUCGGc -3'
miRNA:   3'- gUCGGG---------------UGgCCAGACGuGGUUGGGCU- -5'
2907 3' -59.8 NC_001493.1 + 19888 0.72 0.392931
Target:  5'- cCAGUCCcCCGucgggaGUC-GCGCCGGCCCGAa -3'
miRNA:   3'- -GUCGGGuGGC------CAGaCGUGGUUGGGCU- -5'
2907 3' -59.8 NC_001493.1 + 88494 0.7 0.472013
Target:  5'- gGGCCCACguaCGGUgggUUGaCACaCGACCCGAa -3'
miRNA:   3'- gUCGGGUG---GCCA---GAC-GUG-GUUGGGCU- -5'
2907 3' -59.8 NC_001493.1 + 49457 0.69 0.50966
Target:  5'- uGGCauggAUCGGUCUcGCACCGACCCu- -3'
miRNA:   3'- gUCGgg--UGGCCAGA-CGUGGUUGGGcu -5'
2907 3' -59.8 NC_001493.1 + 110881 0.69 0.519271
Target:  5'- cCGGUCCcgGCgGGUUUcaGCACCAGCCaCGAa -3'
miRNA:   3'- -GUCGGG--UGgCCAGA--CGUGGUUGG-GCU- -5'
2907 3' -59.8 NC_001493.1 + 22796 0.69 0.548507
Target:  5'- gAGCCCGacUCGGUCUaCACgguaGACCCGGg -3'
miRNA:   3'- gUCGGGU--GGCCAGAcGUGg---UUGGGCU- -5'
2907 3' -59.8 NC_001493.1 + 50225 0.69 0.548507
Target:  5'- --aCCCuuACCGGUCUGCgaagggGCCAACUCGu -3'
miRNA:   3'- gucGGG--UGGCCAGACG------UGGUUGGGCu -5'
2907 3' -59.8 NC_001493.1 + 97077 0.68 0.588232
Target:  5'- aGGCuCCACCucggGGUCUGC-CCGGCCg-- -3'
miRNA:   3'- gUCG-GGUGG----CCAGACGuGGUUGGgcu -5'
2907 3' -59.8 NC_001493.1 + 70425 0.66 0.737704
Target:  5'- -uGCCagCACCGGUCgagGCACCGguACagCGAa -3'
miRNA:   3'- guCGG--GUGGCCAGa--CGUGGU--UGg-GCU- -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.