miRNA display CGI


Results 1 - 20 of 55 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
14608 5' -54.9 NC_003521.1 + 219853 1.11 0.004235
Target:  5'- gGGCCCGAGAGCAUGAGGAUCAGCAUGa -3'
miRNA:   3'- -CCGGGCUCUCGUACUCCUAGUCGUAC- -5'
14608 5' -54.9 NC_003521.1 + 128679 0.77 0.488073
Target:  5'- aGGCCCGAGAGCAgcgacaUGAuGAUCuGCAUc -3'
miRNA:   3'- -CCGGGCUCUCGU------ACUcCUAGuCGUAc -5'
14608 5' -54.9 NC_003521.1 + 228599 0.77 0.488073
Target:  5'- uGCCCGcAGAGCAUGAGGggCcGCGUc -3'
miRNA:   3'- cCGGGC-UCUCGUACUCCuaGuCGUAc -5'
14608 5' -54.9 NC_003521.1 + 223487 0.76 0.526216
Target:  5'- cGGCCCGGGAG-GUGGggcGGAUCGGCGa- -3'
miRNA:   3'- -CCGGGCUCUCgUACU---CCUAGUCGUac -5'
14608 5' -54.9 NC_003521.1 + 86658 0.73 0.695575
Target:  5'- cGGCCgaCGAcAGguUGAGGAUCAGCGc- -3'
miRNA:   3'- -CCGG--GCUcUCguACUCCUAGUCGUac -5'
14608 5' -54.9 NC_003521.1 + 124090 0.72 0.744279
Target:  5'- gGGCCCGAcGGCGUGGGcGGgaagCAGCGc- -3'
miRNA:   3'- -CCGGGCUcUCGUACUC-CUa---GUCGUac -5'
14608 5' -54.9 NC_003521.1 + 175926 0.72 0.744279
Target:  5'- uGGCCCGAgGAGCcgGAGGAggaCAGa--- -3'
miRNA:   3'- -CCGGGCU-CUCGuaCUCCUa--GUCguac -5'
14608 5' -54.9 NC_003521.1 + 43654 0.72 0.75377
Target:  5'- cGCCgGAGAGCAgagagGAGGAgaggaggagCAGCAg- -3'
miRNA:   3'- cCGGgCUCUCGUa----CUCCUa--------GUCGUac -5'
14608 5' -54.9 NC_003521.1 + 167751 0.72 0.75377
Target:  5'- uGGCCgGcGGAGC-UGAGGGUCAccgacaugGCGUGg -3'
miRNA:   3'- -CCGGgC-UCUCGuACUCCUAGU--------CGUAC- -5'
14608 5' -54.9 NC_003521.1 + 128158 0.72 0.763157
Target:  5'- aGGCCUGcaggcAGGGCGUGGGGucgugCAGCAc- -3'
miRNA:   3'- -CCGGGC-----UCUCGUACUCCua---GUCGUac -5'
14608 5' -54.9 NC_003521.1 + 196083 0.72 0.763157
Target:  5'- uGGCgCGAGAGCugcaGAccccGGAUCAGCGUc -3'
miRNA:   3'- -CCGgGCUCUCGua--CU----CCUAGUCGUAc -5'
14608 5' -54.9 NC_003521.1 + 212640 0.72 0.780676
Target:  5'- uGUCCGuacuggcGGAGCAUGcAGGGuaUCAGCAUGc -3'
miRNA:   3'- cCGGGC-------UCUCGUAC-UCCU--AGUCGUAC- -5'
14608 5' -54.9 NC_003521.1 + 99184 0.71 0.791505
Target:  5'- cGGCCUGGGGGCugaagguggcggcgGAGGAUaCGGCGg- -3'
miRNA:   3'- -CCGGGCUCUCGua------------CUCCUA-GUCGUac -5'
14608 5' -54.9 NC_003521.1 + 5416 0.71 0.816822
Target:  5'- cGCCCGAGgacgaGGCG-GAGGAaUCGGCGUc -3'
miRNA:   3'- cCGGGCUC-----UCGUaCUCCU-AGUCGUAc -5'
14608 5' -54.9 NC_003521.1 + 124170 0.7 0.849467
Target:  5'- cGGCUgGAGAGCGaGAGGc-CGGCGUa -3'
miRNA:   3'- -CCGGgCUCUCGUaCUCCuaGUCGUAc -5'
14608 5' -54.9 NC_003521.1 + 236239 0.7 0.857169
Target:  5'- cGGCCCGuuAGCAaaccgGAGGc-CGGCGUGu -3'
miRNA:   3'- -CCGGGCucUCGUa----CUCCuaGUCGUAC- -5'
14608 5' -54.9 NC_003521.1 + 125508 0.7 0.857169
Target:  5'- aGGCCCagcgucguGGuGC-UGAGGAUCGGCAg- -3'
miRNA:   3'- -CCGGGc-------UCuCGuACUCCUAGUCGUac -5'
14608 5' -54.9 NC_003521.1 + 39322 0.7 0.864674
Target:  5'- cGGCgUCGcGGGCGgcuAGGGUCAGCGUGu -3'
miRNA:   3'- -CCG-GGCuCUCGUac-UCCUAGUCGUAC- -5'
14608 5' -54.9 NC_003521.1 + 239549 0.7 0.864674
Target:  5'- cGGCgUCGcGGGCGgcuAGGGUCAGCGUGu -3'
miRNA:   3'- -CCG-GGCuCUCGUac-UCCUAGUCGUAC- -5'
14608 5' -54.9 NC_003521.1 + 198969 0.7 0.864674
Target:  5'- aGGCgCGAGAGCGUGcuGAccgucagccUCAGCGUc -3'
miRNA:   3'- -CCGgGCUCUCGUACucCU---------AGUCGUAc -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.