miRNA display CGI


Results 1 - 16 of 16 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
10403 3' -53.9 NC_002687.1 + 85877 0.66 0.99508
Target:  5'- gUCCUGccGCGCCGGcgGGAccaGCGggUCCAg -3'
miRNA:   3'- aAGGAC--UGUGGCUa-CCU---UGCagAGGU- -5'
10403 3' -53.9 NC_002687.1 + 90882 0.66 0.99508
Target:  5'- --aCUGGCGCCGGaauUGGggUGUUgguaCCAg -3'
miRNA:   3'- aagGACUGUGGCU---ACCuuGCAGa---GGU- -5'
10403 3' -53.9 NC_002687.1 + 151324 0.66 0.99508
Target:  5'- -gCCU--CGCCGAUGGA-CGUCcacUCCAg -3'
miRNA:   3'- aaGGAcuGUGGCUACCUuGCAG---AGGU- -5'
10403 3' -53.9 NC_002687.1 + 80407 0.66 0.99508
Target:  5'- -gCCgGACGCCGAUGGAAauUGUg-CCGu -3'
miRNA:   3'- aaGGaCUGUGGCUACCUU--GCAgaGGU- -5'
10403 3' -53.9 NC_002687.1 + 92812 0.66 0.994331
Target:  5'- aUCCgugaccGACACCGGUaucGGAAUGUCUg-- -3'
miRNA:   3'- aAGGa-----CUGUGGCUA---CCUUGCAGAggu -5'
10403 3' -53.9 NC_002687.1 + 57971 0.66 0.994331
Target:  5'- gUCagauAUACCGAccGAACGUCUCCAa -3'
miRNA:   3'- aAGgac-UGUGGCUacCUUGCAGAGGU- -5'
10403 3' -53.9 NC_002687.1 + 109057 0.66 0.991522
Target:  5'- --gCUGACGCCGAUGG--CGUCguaCAa -3'
miRNA:   3'- aagGACUGUGGCUACCuuGCAGag-GU- -5'
10403 3' -53.9 NC_002687.1 + 111561 0.66 0.990373
Target:  5'- ----gGAC-UCGAUGGAAuCGUCUCCGg -3'
miRNA:   3'- aaggaCUGuGGCUACCUU-GCAGAGGU- -5'
10403 3' -53.9 NC_002687.1 + 295365 0.67 0.982694
Target:  5'- -gUUUGAUACCGGUGGcccGCGUUUCUg -3'
miRNA:   3'- aaGGACUGUGGCUACCu--UGCAGAGGu -5'
10403 3' -53.9 NC_002687.1 + 331776 0.67 0.982694
Target:  5'- aUCCc-GCGCCGAUGGcacAUGUUUCCGa -3'
miRNA:   3'- aAGGacUGUGGCUACCu--UGCAGAGGU- -5'
10403 3' -53.9 NC_002687.1 + 134081 0.68 0.973782
Target:  5'- gUCCUGGCuuuuuuugcgggcuCCGGUGGugugaacauucucGCGUCUCCu -3'
miRNA:   3'- aAGGACUGu-------------GGCUACCu------------UGCAGAGGu -5'
10403 3' -53.9 NC_002687.1 + 141413 0.69 0.965194
Target:  5'- cUCC-GGCACCGGuguacgugcuccUGGAGuucUGUCUCCAu -3'
miRNA:   3'- aAGGaCUGUGGCU------------ACCUU---GCAGAGGU- -5'
10403 3' -53.9 NC_002687.1 + 205733 0.7 0.937936
Target:  5'- --aUUGACGCCGA-GGGACGagUCCAc -3'
miRNA:   3'- aagGACUGUGGCUaCCUUGCagAGGU- -5'
10403 3' -53.9 NC_002687.1 + 315416 0.71 0.911832
Target:  5'- gUUCCUGGCAggaaaCGAUGGAcaucuccgacACGUCgUCCGa -3'
miRNA:   3'- -AAGGACUGUg----GCUACCU----------UGCAG-AGGU- -5'
10403 3' -53.9 NC_002687.1 + 86282 0.71 0.905939
Target:  5'- uUUCCUG-CACCGAUGuaggagacGGACGUCacUCCGa -3'
miRNA:   3'- -AAGGACuGUGGCUAC--------CUUGCAG--AGGU- -5'
10403 3' -53.9 NC_002687.1 + 264092 1.06 0.014253
Target:  5'- aUUCCUGACACCGAUGGAACGUCUCCAc -3'
miRNA:   3'- -AAGGACUGUGGCUACCUUGCAGAGGU- -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.