miRNA display CGI


Results 1 - 18 of 18 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
7284 3' -51.7 NC_001900.1 + 215 0.66 0.876618
Target:  5'- aGACU-CCUUcccuauuaAUGAGgGgcuGAAGGCCCc -3'
miRNA:   3'- cCUGAuGGAG--------UACUCgUu--CUUCCGGG- -5'
7284 3' -51.7 NC_001900.1 + 40728 0.66 0.868502
Target:  5'- cGGACUGgga-GUGgcacGGCAAGAAGGCUg -3'
miRNA:   3'- -CCUGAUggagUAC----UCGUUCUUCCGGg -5'
7284 3' -51.7 NC_001900.1 + 13482 0.66 0.868502
Target:  5'- aGGGCUACCUCucgGAGacCGAcGGGGCg- -3'
miRNA:   3'- -CCUGAUGGAGua-CUC--GUUcUUCCGgg -5'
7284 3' -51.7 NC_001900.1 + 12151 0.66 0.851491
Target:  5'- aGGGCUACCUg--GAGCccGAGcAGGCg- -3'
miRNA:   3'- -CCUGAUGGAguaCUCG--UUCuUCCGgg -5'
7284 3' -51.7 NC_001900.1 + 12178 0.67 0.824157
Target:  5'- aGGACUACUUCGccGAGgcCGAGAAGaCCUc -3'
miRNA:   3'- -CCUGAUGGAGUa-CUC--GUUCUUCcGGG- -5'
7284 3' -51.7 NC_001900.1 + 2575 0.67 0.824157
Target:  5'- aGGGCguaGCC-CGacGGCGGGAacucaAGGCCCg -3'
miRNA:   3'- -CCUGa--UGGaGUacUCGUUCU-----UCCGGG- -5'
7284 3' -51.7 NC_001900.1 + 47398 0.68 0.774446
Target:  5'- cGGuCUGCCcaGUGGGCAAGGGuucuccuGCCCg -3'
miRNA:   3'- -CCuGAUGGagUACUCGUUCUUc------CGGG- -5'
7284 3' -51.7 NC_001900.1 + 41792 0.68 0.76293
Target:  5'- cGACgugGCCUCAgagaaccUGAGCA---AGGCCg -3'
miRNA:   3'- cCUGa--UGGAGU-------ACUCGUucuUCCGGg -5'
7284 3' -51.7 NC_001900.1 + 41592 0.69 0.731781
Target:  5'- cGGACaacgucacgUACUUCGUgGAGCAGaucGAAGGCgCg -3'
miRNA:   3'- -CCUG---------AUGGAGUA-CUCGUU---CUUCCGgG- -5'
7284 3' -51.7 NC_001900.1 + 5164 0.69 0.720817
Target:  5'- gGGACUcccagucgacGCCUCGUu-GCGAGAccuucaccGGGCCa -3'
miRNA:   3'- -CCUGA----------UGGAGUAcuCGUUCU--------UCCGGg -5'
7284 3' -51.7 NC_001900.1 + 35718 0.69 0.68741
Target:  5'- uGGcGCUGgUUCcgGGGCAAGAAGGgCg -3'
miRNA:   3'- -CC-UGAUgGAGuaCUCGUUCUUCCgGg -5'
7284 3' -51.7 NC_001900.1 + 47342 0.7 0.619384
Target:  5'- aGGugUGCUaCGcGGGCAagcuggAGAAGGUCCg -3'
miRNA:   3'- -CCugAUGGaGUaCUCGU------UCUUCCGGG- -5'
7284 3' -51.7 NC_001900.1 + 44266 0.71 0.574117
Target:  5'- cGACUACUUCAuggUGGGgAAGAAGGgCa -3'
miRNA:   3'- cCUGAUGGAGU---ACUCgUUCUUCCgGg -5'
7284 3' -51.7 NC_001900.1 + 11249 0.72 0.537354
Target:  5'- cGACUGCCUgGUGGuGCcugucuucgacgugGAGAAcuGGCCCg -3'
miRNA:   3'- cCUGAUGGAgUACU-CG--------------UUCUU--CCGGG- -5'
7284 3' -51.7 NC_001900.1 + 10583 0.72 0.507893
Target:  5'- cGGCgucgACCaUCGUGcccAGCAGGccGAGGCCCa -3'
miRNA:   3'- cCUGa---UGG-AGUAC---UCGUUC--UUCCGGG- -5'
7284 3' -51.7 NC_001900.1 + 15481 0.73 0.497154
Target:  5'- cGGACaccgGCCUUGUGGGCGuGguGGCCa -3'
miRNA:   3'- -CCUGa---UGGAGUACUCGUuCuuCCGGg -5'
7284 3' -51.7 NC_001900.1 + 15792 0.73 0.455286
Target:  5'- -cGCUGCUgaagC-UGGGCcAGAAGGCCCg -3'
miRNA:   3'- ccUGAUGGa---GuACUCGuUCUUCCGGG- -5'
7284 3' -51.7 NC_001900.1 + 9107 1.16 0.000675
Target:  5'- aGGACUACCUCAUGAGCAAGAAGGCCCg -3'
miRNA:   3'- -CCUGAUGGAGUACUCGUUCUUCCGGG- -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.