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
19711 3' -52.4 NC_004686.1 + 46722 1.15 0.000898
Target:  5'- cGGAUAUGGUCAACACGGCAGCGUCCCu -3'
miRNA:   3'- -CCUAUACCAGUUGUGCCGUCGCAGGG- -5'
19711 3' -52.4 NC_004686.1 + 18270 0.88 0.058051
Target:  5'- uGGGUuggugGGUCAGCACGGCAGCGgggcgagccUCCCg -3'
miRNA:   3'- -CCUAua---CCAGUUGUGCCGUCGC---------AGGG- -5'
19711 3' -52.4 NC_004686.1 + 29007 0.85 0.092413
Target:  5'- cGGUGUGGUucuugaacggCAACGCGGUGGUGUCCCa -3'
miRNA:   3'- cCUAUACCA----------GUUGUGCCGUCGCAGGG- -5'
19711 3' -52.4 NC_004686.1 + 11190 0.74 0.437964
Target:  5'- cGGAUucuccaaugGUGGUgcgaucaAGCAgGGCGGCGUUCCg -3'
miRNA:   3'- -CCUA---------UACCAg------UUGUgCCGUCGCAGGG- -5'
19711 3' -52.4 NC_004686.1 + 36316 0.74 0.467854
Target:  5'- cGAgcUGGUCGccgagguugaGCGGCuGCGUCCCa -3'
miRNA:   3'- cCUauACCAGUug--------UGCCGuCGCAGGG- -5'
19711 3' -52.4 NC_004686.1 + 9094 0.72 0.53699
Target:  5'- gGGAgcgaacUGG-CAACGCGGCGGCGguaagggaacacgCCCc -3'
miRNA:   3'- -CCUau----ACCaGUUGUGCCGUCGCa------------GGG- -5'
19711 3' -52.4 NC_004686.1 + 39667 0.72 0.563034
Target:  5'- cGGGUGagGGUgCGGCACGGCAucagccGCGgcgaagCCCa -3'
miRNA:   3'- -CCUAUa-CCA-GUUGUGCCGU------CGCa-----GGG- -5'
19711 3' -52.4 NC_004686.1 + 2525 0.71 0.607107
Target:  5'- --uUGUGGcugcgaugCAGCACGGUccGGCGUUCCu -3'
miRNA:   3'- ccuAUACCa-------GUUGUGCCG--UCGCAGGG- -5'
19711 3' -52.4 NC_004686.1 + 15581 0.71 0.629311
Target:  5'- ----cUGGUCgAACGUGGCGGCGUCgCa -3'
miRNA:   3'- ccuauACCAG-UUGUGCCGUCGCAGgG- -5'
19711 3' -52.4 NC_004686.1 + 42906 0.7 0.673667
Target:  5'- -aAUAUGGcgUCGACACGuGCGGCuUCUCa -3'
miRNA:   3'- ccUAUACC--AGUUGUGC-CGUCGcAGGG- -5'
19711 3' -52.4 NC_004686.1 + 31562 0.7 0.673667
Target:  5'- cGGGgcUGGUC---ACGGCAGCcUCCUg -3'
miRNA:   3'- -CCUauACCAGuugUGCCGUCGcAGGG- -5'
19711 3' -52.4 NC_004686.1 + 19207 0.7 0.673667
Target:  5'- cGGGUGUGGgCGGCaAUGGUGGCGaCaCCg -3'
miRNA:   3'- -CCUAUACCaGUUG-UGCCGUCGCaG-GG- -5'
19711 3' -52.4 NC_004686.1 + 1019 0.7 0.695648
Target:  5'- cGGAUuUGGUgGGCGuCGGCGGC-UgCCg -3'
miRNA:   3'- -CCUAuACCAgUUGU-GCCGUCGcAgGG- -5'
19711 3' -52.4 NC_004686.1 + 2758 0.69 0.717378
Target:  5'- uGGUGUGGUCAcaGCGGUgAGgGUCgCCc -3'
miRNA:   3'- cCUAUACCAGUugUGCCG-UCgCAG-GG- -5'
19711 3' -52.4 NC_004686.1 + 31729 0.69 0.717378
Target:  5'- aGGugucgGUGGUCucGACAUGGUGGCGgCCg -3'
miRNA:   3'- -CCua---UACCAG--UUGUGCCGUCGCaGGg -5'
19711 3' -52.4 NC_004686.1 + 36161 0.69 0.728121
Target:  5'- uGGAUugccaUCAACACGGCGGUGgCCg -3'
miRNA:   3'- -CCUAuacc-AGUUGUGCCGUCGCaGGg -5'
19711 3' -52.4 NC_004686.1 + 412 0.69 0.728121
Target:  5'- cGGGc--GGUCAAC-CGGCGG-GUCCg -3'
miRNA:   3'- -CCUauaCCAGUUGuGCCGUCgCAGGg -5'
19711 3' -52.4 NC_004686.1 + 18946 0.69 0.738765
Target:  5'- uGGAg--GGUCccGGCGCGGgAGCGggggaaccaugCCCg -3'
miRNA:   3'- -CCUauaCCAG--UUGUGCCgUCGCa----------GGG- -5'
19711 3' -52.4 NC_004686.1 + 27676 0.68 0.768973
Target:  5'- uGGGUcgGUGGUCcgaccgcgauccuGACGCGGguGCuGUCgCu -3'
miRNA:   3'- -CCUA--UACCAG-------------UUGUGCCguCG-CAGgG- -5'
19711 3' -52.4 NC_004686.1 + 54911 0.68 0.769995
Target:  5'- -----cGG---GCGCGGCGGCGUaCCCa -3'
miRNA:   3'- ccuauaCCaguUGUGCCGUCGCA-GGG- -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.