miRNA display CGI


Results 1 - 20 of 40 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
13956 3' -55.6 NC_003521.1 + 228981 0.66 0.971581
Target:  5'- aGGUGCgc--GGGcgGCGCAGGAc-- -3'
miRNA:   3'- gCCAUGguucCCCuaCGCGUCCUacu -5'
13956 3' -55.6 NC_003521.1 + 35196 0.66 0.971581
Target:  5'- uCGGacCCAgggacAGGGGgcGCGCGGGucgGAu -3'
miRNA:   3'- -GCCauGGU-----UCCCCuaCGCGUCCua-CU- -5'
13956 3' -55.6 NC_003521.1 + 92525 0.66 0.971306
Target:  5'- cCGGUAgcggcagcggcacCCAGGGaGGGU-CGaCGGGAUGGg -3'
miRNA:   3'- -GCCAU-------------GGUUCC-CCUAcGC-GUCCUACU- -5'
13956 3' -55.6 NC_003521.1 + 185168 0.66 0.968742
Target:  5'- gCGGcGgCAAcGGGGGUGCcaGCGGGGuaUGAg -3'
miRNA:   3'- -GCCaUgGUU-CCCCUACG--CGUCCU--ACU- -5'
13956 3' -55.6 NC_003521.1 + 17168 0.66 0.968151
Target:  5'- aCGGUgauuggaggcgcgGCCGAGGGGGUcgaggcgGCcGCGGGGa-- -3'
miRNA:   3'- -GCCA-------------UGGUUCCCCUA-------CG-CGUCCUacu -5'
13956 3' -55.6 NC_003521.1 + 166183 0.66 0.968151
Target:  5'- aCGGUGgCGGcGGuGGAgucggcccggcaGCGCGGGGUGGu -3'
miRNA:   3'- -GCCAUgGUU-CC-CCUa-----------CGCGUCCUACU- -5'
13956 3' -55.6 NC_003521.1 + 42570 0.66 0.962471
Target:  5'- gCGGgGCCAaaaacaGGGGGAUGCGUaccgucugcgAGGGc-- -3'
miRNA:   3'- -GCCaUGGU------UCCCCUACGCG----------UCCUacu -5'
13956 3' -55.6 NC_003521.1 + 119476 0.66 0.962471
Target:  5'- ---aGCCGcGcGGGgcGUGCAGGGUGAa -3'
miRNA:   3'- gccaUGGUuC-CCCuaCGCGUCCUACU- -5'
13956 3' -55.6 NC_003521.1 + 26528 0.66 0.959028
Target:  5'- cCGGUGCCu--GGGGUGCaGCAGcGcUGGc -3'
miRNA:   3'- -GCCAUGGuucCCCUACG-CGUC-CuACU- -5'
13956 3' -55.6 NC_003521.1 + 148799 0.66 0.955374
Target:  5'- cCGcGU-CCucGGGGAagGCGCGGGAgGAg -3'
miRNA:   3'- -GC-CAuGGuuCCCCUa-CGCGUCCUaCU- -5'
13956 3' -55.6 NC_003521.1 + 143244 0.67 0.951504
Target:  5'- cCGGUGCgacaGAGaGGGGUGCGggcCAGGGaGAc -3'
miRNA:   3'- -GCCAUGg---UUC-CCCUACGC---GUCCUaCU- -5'
13956 3' -55.6 NC_003521.1 + 132805 0.67 0.947417
Target:  5'- gCGGcACCGAGGGcGGUG-GUGGcGGUGAc -3'
miRNA:   3'- -GCCaUGGUUCCC-CUACgCGUC-CUACU- -5'
13956 3' -55.6 NC_003521.1 + 146504 0.67 0.947417
Target:  5'- gCGGgucaaagACCAcGGGGGUGacgaugaugaGCAGGggGAu -3'
miRNA:   3'- -GCCa------UGGUuCCCCUACg---------CGUCCuaCU- -5'
13956 3' -55.6 NC_003521.1 + 193282 0.67 0.947417
Target:  5'- gGGUGCCGggacGGGcgucGGAgucgGCGCGgGGGUGGu -3'
miRNA:   3'- gCCAUGGU----UCC----CCUa---CGCGU-CCUACU- -5'
13956 3' -55.6 NC_003521.1 + 233224 0.67 0.947417
Target:  5'- aCGGccuCCAuGGGGAUGagcuccaGCAGGAgcaGAg -3'
miRNA:   3'- -GCCau-GGUuCCCCUACg------CGUCCUa--CU- -5'
13956 3' -55.6 NC_003521.1 + 120533 0.67 0.943108
Target:  5'- gCGGU-CCcGGGGGA-GCGCccgGGGAUa- -3'
miRNA:   3'- -GCCAuGGuUCCCCUaCGCG---UCCUAcu -5'
13956 3' -55.6 NC_003521.1 + 202124 0.67 0.939039
Target:  5'- aGGUACCGGgacgggcuugucuucGGGGAUGgcgccgagccagacCGCAGGAcgcgGAa -3'
miRNA:   3'- gCCAUGGUU---------------CCCCUAC--------------GCGUCCUa---CU- -5'
13956 3' -55.6 NC_003521.1 + 239191 0.67 0.939039
Target:  5'- aGGUACCGGgacgggcuugucuucGGGGAUGgcgccgagccagacCGCAGGAcgcgGAa -3'
miRNA:   3'- gCCAUGGUU---------------CCCCUAC--------------GCGUCCUa---CU- -5'
13956 3' -55.6 NC_003521.1 + 74627 0.67 0.933818
Target:  5'- ---cGCCAacagcGGGGuGGUGCGCGGGAcccUGGa -3'
miRNA:   3'- gccaUGGU-----UCCC-CUACGCGUCCU---ACU- -5'
13956 3' -55.6 NC_003521.1 + 110451 0.67 0.928834
Target:  5'- uGGUGcCCAGGGGGAggaauuccUGCuccagGCAGGG-GAu -3'
miRNA:   3'- gCCAU-GGUUCCCCU--------ACG-----CGUCCUaCU- -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.