miRNA display CGI


Results 1 - 20 of 24 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
23444 3' -61.3 NC_005259.1 + 34480 0.66 0.512988
Target:  5'- gCUUGGUGguGUCCcccGCCgacgcgacgacgaugUCGCCGa- -3'
miRNA:   3'- gGAGCCACguCAGGc--CGG---------------AGCGGCag -5'
23444 3' -61.3 NC_005259.1 + 19854 0.66 0.499283
Target:  5'- gCUCGGUGUGGcgCuCGcGCC-CGCCGg- -3'
miRNA:   3'- gGAGCCACGUCa-G-GC-CGGaGCGGCag -5'
23444 3' -61.3 NC_005259.1 + 58561 0.66 0.499283
Target:  5'- gCUCGG-GCGGUUgGGCCggaUCGCgG-Cg -3'
miRNA:   3'- gGAGCCaCGUCAGgCCGG---AGCGgCaG- -5'
23444 3' -61.3 NC_005259.1 + 10624 0.66 0.496367
Target:  5'- -gUgGGUGC-GUCgaggccgaacagcuUGGCCUCGCgGUCg -3'
miRNA:   3'- ggAgCCACGuCAG--------------GCCGGAGCGgCAG- -5'
23444 3' -61.3 NC_005259.1 + 3271 0.66 0.489594
Target:  5'- gCUCGG-GUGGUuucCCGucgccGCCUCGCCGg- -3'
miRNA:   3'- gGAGCCaCGUCA---GGC-----CGGAGCGGCag -5'
23444 3' -61.3 NC_005259.1 + 27916 0.66 0.460139
Target:  5'- aCCgcgCGGgugguaGCGGUUCGGCgacccagCUCGCCGg- -3'
miRNA:   3'- -GGa--GCCa-----CGUCAGGCCG-------GAGCGGCag -5'
23444 3' -61.3 NC_005259.1 + 17316 0.67 0.451764
Target:  5'- gCCgagCGGUaccccgagGguGUgCCGGUCaacgUCGCCGUCg -3'
miRNA:   3'- -GGa--GCCA--------CguCA-GGCCGG----AGCGGCAG- -5'
23444 3' -61.3 NC_005259.1 + 63675 0.67 0.451764
Target:  5'- aCCUCGG-GCA--CCGGCg-CGCCGg- -3'
miRNA:   3'- -GGAGCCaCGUcaGGCCGgaGCGGCag -5'
23444 3' -61.3 NC_005259.1 + 55053 0.67 0.450838
Target:  5'- gCCUCGGUgGCAGUCugcgcgagaucagCGGCUuucuucugcugaUCGCUGcCg -3'
miRNA:   3'- -GGAGCCA-CGUCAG-------------GCCGG------------AGCGGCaG- -5'
23444 3' -61.3 NC_005259.1 + 66188 0.68 0.39818
Target:  5'- aCCgcugcCGGUGCAGUaCgGGUCaggCGCgGUCg -3'
miRNA:   3'- -GGa----GCCACGUCA-GgCCGGa--GCGgCAG- -5'
23444 3' -61.3 NC_005259.1 + 62928 0.68 0.396465
Target:  5'- uCCUCGGUuuGCGGcucgcgcugcugCCGGgcaccgcuguCCUCGUCGUCu -3'
miRNA:   3'- -GGAGCCA--CGUCa-----------GGCC----------GGAGCGGCAG- -5'
23444 3' -61.3 NC_005259.1 + 40158 0.68 0.37296
Target:  5'- -gUCGGUGCccgccCCGGCagCUCGaCCGUCa -3'
miRNA:   3'- ggAGCCACGuca--GGCCG--GAGC-GGCAG- -5'
23444 3' -61.3 NC_005259.1 + 53457 0.68 0.35676
Target:  5'- aCCacggCGGcugGCucgucGUCCGGCC-CGCCGUa -3'
miRNA:   3'- -GGa---GCCa--CGu----CAGGCCGGaGCGGCAg -5'
23444 3' -61.3 NC_005259.1 + 56402 0.69 0.341062
Target:  5'- gUCUCGaUGguGcCCGGCC-CGCCGa- -3'
miRNA:   3'- -GGAGCcACguCaGGCCGGaGCGGCag -5'
23444 3' -61.3 NC_005259.1 + 49676 0.69 0.333401
Target:  5'- gCUCGGccugGUAGU-CGGCCucgcgcUCGCUGUCg -3'
miRNA:   3'- gGAGCCa---CGUCAgGCCGG------AGCGGCAG- -5'
23444 3' -61.3 NC_005259.1 + 34225 0.69 0.311184
Target:  5'- cCC-CGGcGCuG-CCGGUCUUGCCGUUg -3'
miRNA:   3'- -GGaGCCaCGuCaGGCCGGAGCGGCAG- -5'
23444 3' -61.3 NC_005259.1 + 58844 0.7 0.290109
Target:  5'- cCCUCGGUcuCAcccUCGGgCUCGCCGUCg -3'
miRNA:   3'- -GGAGCCAc-GUca-GGCCgGAGCGGCAG- -5'
23444 3' -61.3 NC_005259.1 + 25690 0.7 0.283337
Target:  5'- --cCGGUGUcccaccccaaAGgacaCCGGCCUCGCUGUUg -3'
miRNA:   3'- ggaGCCACG----------UCa---GGCCGGAGCGGCAG- -5'
23444 3' -61.3 NC_005259.1 + 22526 0.7 0.27017
Target:  5'- aCCgucgcCGGUgauuuccaGCAGUCCGaCCUCGCCGa- -3'
miRNA:   3'- -GGa----GCCA--------CGUCAGGCcGGAGCGGCag -5'
23444 3' -61.3 NC_005259.1 + 30818 0.7 0.263773
Target:  5'- -gUCGG-GUAGUCCGGCg-CGCCGa- -3'
miRNA:   3'- ggAGCCaCGUCAGGCCGgaGCGGCag -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.