miRNA display CGI


Results 1 - 20 of 35 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
7274 5' -55.4 NC_001900.1 + 1849 0.66 0.681912
Target:  5'- cGGguGaCGGCCUCG---GCCUGCGGGc -3'
miRNA:   3'- -CCguCgGUUGGGGCucaUGGAUGUCC- -5'
7274 5' -55.4 NC_001900.1 + 3334 0.77 0.177655
Target:  5'- aGCAGCCcACCCCcug-GCCUGCGGGc -3'
miRNA:   3'- cCGUCGGuUGGGGcucaUGGAUGUCC- -5'
7274 5' -55.4 NC_001900.1 + 6126 1.12 0.000568
Target:  5'- aGGCAGCCAACCCCGAGUACCUACAGGc -3'
miRNA:   3'- -CCGUCGGUUGGGGCUCAUGGAUGUCC- -5'
7274 5' -55.4 NC_001900.1 + 6716 0.69 0.497582
Target:  5'- aGGCAgGCCAGgCCCGAGgggAUCggGCuGGc -3'
miRNA:   3'- -CCGU-CGGUUgGGGCUCa--UGGa-UGuCC- -5'
7274 5' -55.4 NC_001900.1 + 8443 0.68 0.550467
Target:  5'- cGGCAGCCAcguggagucGCCUCGGGcgAUCaACAGc -3'
miRNA:   3'- -CCGUCGGU---------UGGGGCUCa-UGGaUGUCc -5'
7274 5' -55.4 NC_001900.1 + 8799 0.66 0.670975
Target:  5'- aGGCAuacGUCGACuCCUGGGgccggACCUACAa- -3'
miRNA:   3'- -CCGU---CGGUUG-GGGCUCa----UGGAUGUcc -5'
7274 5' -55.4 NC_001900.1 + 9877 0.68 0.593972
Target:  5'- cGGCGGCUcgAAUCCUGA-UGCUgaUGCAGGc -3'
miRNA:   3'- -CCGUCGG--UUGGGGCUcAUGG--AUGUCC- -5'
7274 5' -55.4 NC_001900.1 + 9980 0.66 0.681912
Target:  5'- gGGCAcGCCcaucAGCUCCGcAGUcGCCUGCAu- -3'
miRNA:   3'- -CCGU-CGG----UUGGGGC-UCA-UGGAUGUcc -5'
7274 5' -55.4 NC_001900.1 + 10257 0.67 0.615951
Target:  5'- aGGCGGCUcucugcGGCCCUGAugGCCUcaGCGGa -3'
miRNA:   3'- -CCGUCGG------UUGGGGCUcaUGGA--UGUCc -5'
7274 5' -55.4 NC_001900.1 + 11092 0.7 0.46696
Target:  5'- uGCugauuucCCGugGCCCCGAGUACCUuucggcggauaGCGGGg -3'
miRNA:   3'- cCGuc-----GGU--UGGGGCUCAUGGA-----------UGUCC- -5'
7274 5' -55.4 NC_001900.1 + 11238 0.66 0.691715
Target:  5'- cGCGGCCAGCCUCGuuccagaGGUcGCC-ACGGu -3'
miRNA:   3'- cCGUCGGUUGGGGC-------UCA-UGGaUGUCc -5'
7274 5' -55.4 NC_001900.1 + 11305 0.67 0.649002
Target:  5'- aGGCAGUCGcACCCUGcGUGCC-ACuccucgauguGGGg -3'
miRNA:   3'- -CCGUCGGU-UGGGGCuCAUGGaUG----------UCC- -5'
7274 5' -55.4 NC_001900.1 + 16103 0.72 0.330635
Target:  5'- cGGCGGggcgauucucuCCGACUuguCCGAGUACC-ACGGGg -3'
miRNA:   3'- -CCGUC-----------GGUUGG---GGCUCAUGGaUGUCC- -5'
7274 5' -55.4 NC_001900.1 + 16755 0.66 0.692801
Target:  5'- gGGCGGCU--UCCUGAGccGCCUGCucGGc -3'
miRNA:   3'- -CCGUCGGuuGGGGCUCa-UGGAUGu-CC- -5'
7274 5' -55.4 NC_001900.1 + 17574 0.66 0.670975
Target:  5'- -aCAGCgGACCaCCGAGcugacccaucGCCUGCAGa -3'
miRNA:   3'- ccGUCGgUUGG-GGCUCa---------UGGAUGUCc -5'
7274 5' -55.4 NC_001900.1 + 17784 0.7 0.437341
Target:  5'- cGGuCAGCacaGGCCCC-AGaGCCUGCAGa -3'
miRNA:   3'- -CC-GUCGg--UUGGGGcUCaUGGAUGUCc -5'
7274 5' -55.4 NC_001900.1 + 21697 0.67 0.637987
Target:  5'- gGGUAGCCGAgCaCCGAuGUGCCgACGc- -3'
miRNA:   3'- -CCGUCGGUUgG-GGCU-CAUGGaUGUcc -5'
7274 5' -55.4 NC_001900.1 + 23314 0.68 0.556939
Target:  5'- cGGCGGUCGGCCCCGGcuggGCCgaguucuauaccgGCGGcGg -3'
miRNA:   3'- -CCGUCGGUUGGGGCUca--UGGa------------UGUC-C- -5'
7274 5' -55.4 NC_001900.1 + 23510 0.69 0.518488
Target:  5'- cGGCA-CCAuCCCCG-GUGaggCUGCAGGc -3'
miRNA:   3'- -CCGUcGGUuGGGGCuCAUg--GAUGUCC- -5'
7274 5' -55.4 NC_001900.1 + 23602 0.66 0.703632
Target:  5'- --gAGCC-GCCCCGGaagagGCCUGCAGc -3'
miRNA:   3'- ccgUCGGuUGGGGCUca---UGGAUGUCc -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.