miRNA display CGI


Results 1 - 20 of 43 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
11956 5' -54.9 NC_003278.1 + 2644 0.69 0.459997
Target:  5'- -cUGGGCcAGGucgguCCAGCCGGCGucgaauucgaggcgGCCGu -3'
miRNA:   3'- ccACUUGuUCCu----GGUCGGCCGU--------------UGGC- -5'
11956 5' -54.9 NC_003278.1 + 3365 0.74 0.218538
Target:  5'- ---cAACAAGGGCaAGCCGGCcGCCGa -3'
miRNA:   3'- ccacUUGUUCCUGgUCGGCCGuUGGC- -5'
11956 5' -54.9 NC_003278.1 + 3478 0.67 0.5711
Target:  5'- -cUGAACAAGGucGCCAGCgguaUGGCGAUg- -3'
miRNA:   3'- ccACUUGUUCC--UGGUCG----GCCGUUGgc -5'
11956 5' -54.9 NC_003278.1 + 5204 0.66 0.593586
Target:  5'- cGGUGAcCGGGGGCCGcuGCUGuuGGCUGu -3'
miRNA:   3'- -CCACUuGUUCCUGGU--CGGCcgUUGGC- -5'
11956 5' -54.9 NC_003278.1 + 5961 1.11 0.000443
Target:  5'- uGGUGAACAAGGACCAGCCGGCAACCGa -3'
miRNA:   3'- -CCACUUGUUCCUGGUCGGCCGUUGGC- -5'
11956 5' -54.9 NC_003278.1 + 5993 0.66 0.627548
Target:  5'- cGG-GAaguACuugucguGGACCAGCUcGCGGCCGa -3'
miRNA:   3'- -CCaCU---UGuu-----CCUGGUCGGcCGUUGGC- -5'
11956 5' -54.9 NC_003278.1 + 7166 0.67 0.586822
Target:  5'- uGGUGGGCcagaAGGGAucgcuguugaugugcCCGGCUGG-GACCGg -3'
miRNA:   3'- -CCACUUG----UUCCU---------------GGUCGGCCgUUGGC- -5'
11956 5' -54.9 NC_003278.1 + 7859 0.68 0.483907
Target:  5'- cGUGGuucgccuCGAGGACCGccucggucacGCCGGCGgugcgACCGu -3'
miRNA:   3'- cCACUu------GUUCCUGGU----------CGGCCGU-----UGGC- -5'
11956 5' -54.9 NC_003278.1 + 8090 0.67 0.5711
Target:  5'- --cGAGCAGGGcACCGaacagcaugccGCCGuCAACCGg -3'
miRNA:   3'- ccaCUUGUUCC-UGGU-----------CGGCcGUUGGC- -5'
11956 5' -54.9 NC_003278.1 + 8892 0.67 0.5711
Target:  5'- -cUGGGCAAcGGCaAGCCGGCAAUCc -3'
miRNA:   3'- ccACUUGUUcCUGgUCGGCCGUUGGc -5'
11956 5' -54.9 NC_003278.1 + 9000 0.7 0.394177
Target:  5'- uGGUGAACccucgcccGGGcGGCUAuGCCGGCGgcACCGc -3'
miRNA:   3'- -CCACUUG--------UUC-CUGGU-CGGCCGU--UGGC- -5'
11956 5' -54.9 NC_003278.1 + 9083 0.69 0.413187
Target:  5'- uGGUGcuCGGcGGugCcGCCGGCAuaGCCGc -3'
miRNA:   3'- -CCACuuGUU-CCugGuCGGCCGU--UGGC- -5'
11956 5' -54.9 NC_003278.1 + 9782 0.71 0.340661
Target:  5'- cGGUGAuaGCGGGGcGCuguugCAGCCGGCGAgCa -3'
miRNA:   3'- -CCACU--UGUUCC-UG-----GUCGGCCGUUgGc -5'
11956 5' -54.9 NC_003278.1 + 11931 0.68 0.5041
Target:  5'- cGGcGAugccCAAGGcaGCCAGCCGGuCAgcaggucGCCGg -3'
miRNA:   3'- -CCaCUu---GUUCC--UGGUCGGCC-GU-------UGGC- -5'
11956 5' -54.9 NC_003278.1 + 12499 0.69 0.46308
Target:  5'- --gGAGCAucGAUCAGCucCGGCAACUGg -3'
miRNA:   3'- ccaCUUGUucCUGGUCG--GCCGUUGGC- -5'
11956 5' -54.9 NC_003278.1 + 12625 0.66 0.627548
Target:  5'- -aUGAGCAccuGGCCGGCCaGGUucuGGCCGg -3'
miRNA:   3'- ccACUUGUuc-CUGGUCGG-CCG---UUGGC- -5'
11956 5' -54.9 NC_003278.1 + 14615 0.73 0.256736
Target:  5'- aGG-GAcGCAAGGuGCUGGCCGGCAACgGc -3'
miRNA:   3'- -CCaCU-UGUUCC-UGGUCGGCCGUUGgC- -5'
11956 5' -54.9 NC_003278.1 + 14765 0.66 0.627548
Target:  5'- cGGUGAccGCAcGGuagguGCCGGCAcccacGCCGg -3'
miRNA:   3'- -CCACU--UGUuCCuggu-CGGCCGU-----UGGC- -5'
11956 5' -54.9 NC_003278.1 + 15046 0.69 0.46308
Target:  5'- cGGUGAACGccaaAGGACUGGuuaCCGG-AGCCa -3'
miRNA:   3'- -CCACUUGU----UCCUGGUC---GGCCgUUGGc -5'
11956 5' -54.9 NC_003278.1 + 15445 0.73 0.250009
Target:  5'- uGGUGucGCAGGGACUGGCCacGGCAgugcauACCa -3'
miRNA:   3'- -CCACu-UGUUCCUGGUCGG--CCGU------UGGc -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.