miRNA display CGI


Results 1 - 20 of 51 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
23504 3' -56 NC_005259.1 + 60072 0.66 0.747367
Target:  5'- -aGGCuCGGGcgGC-UCgccgacuuucucgauGGCGAGCUCGACc -3'
miRNA:   3'- uaCUG-GCCU--UGuAG---------------CCGCUCGAGCUG- -5'
23504 3' -56 NC_005259.1 + 9355 0.71 0.43799
Target:  5'- gAUGACCgucuguaGGucguAC-UCGGCGAGCUCGGa -3'
miRNA:   3'- -UACUGG-------CCu---UGuAGCCGCUCGAGCUg -5'
23504 3' -56 NC_005259.1 + 4130 0.71 0.438946
Target:  5'- cGUGGCCaaGAcCGUCGGCGAGUUCaagGACg -3'
miRNA:   3'- -UACUGGc-CUuGUAGCCGCUCGAG---CUG- -5'
23504 3' -56 NC_005259.1 + 7627 0.7 0.468164
Target:  5'- -gGGCCGGAccuacacCGUCGcCGAGUUCGACc -3'
miRNA:   3'- uaCUGGCCUu------GUAGCcGCUCGAGCUG- -5'
23504 3' -56 NC_005259.1 + 54488 0.7 0.488187
Target:  5'- --cGCCGaGGGuCAUCGGCGGGCauggCGGCg -3'
miRNA:   3'- uacUGGC-CUU-GUAGCCGCUCGa---GCUG- -5'
23504 3' -56 NC_005259.1 + 67835 0.7 0.498349
Target:  5'- -cGACCGGcAGCc-CGGUGAGCgggUCGACc -3'
miRNA:   3'- uaCUGGCC-UUGuaGCCGCUCG---AGCUG- -5'
23504 3' -56 NC_005259.1 + 47886 0.69 0.539873
Target:  5'- uUGGCCGGGucaGCGUCGGCucguuGAGCgccUUGAUg -3'
miRNA:   3'- uACUGGCCU---UGUAGCCG-----CUCG---AGCUG- -5'
23504 3' -56 NC_005259.1 + 11569 0.69 0.539873
Target:  5'- uUGAUCGGuAGCAaaaUCGuaGCGGGCUUGGCc -3'
miRNA:   3'- uACUGGCC-UUGU---AGC--CGCUCGAGCUG- -5'
23504 3' -56 NC_005259.1 + 42550 0.69 0.539873
Target:  5'- gGUGGCgGGcAGC-UCGGCGAGCagccggucgucaUCGAUa -3'
miRNA:   3'- -UACUGgCC-UUGuAGCCGCUCG------------AGCUG- -5'
23504 3' -56 NC_005259.1 + 27385 0.71 0.42944
Target:  5'- gGUGACCGGcggcggugucGGCAgCGGCGgcAGCUCGGu -3'
miRNA:   3'- -UACUGGCC----------UUGUaGCCGC--UCGAGCUg -5'
23504 3' -56 NC_005259.1 + 17334 0.71 0.398954
Target:  5'- gGUGuGCCGGucaacgucgccgucGAgGUCGGCG-GCUCGGCg -3'
miRNA:   3'- -UAC-UGGCC--------------UUgUAGCCGCuCGAGCUG- -5'
23504 3' -56 NC_005259.1 + 46647 0.72 0.383799
Target:  5'- cAUGGCCacacGGcuGCGguugagguucUCGGCGAGCUCGGCc -3'
miRNA:   3'- -UACUGG----CCu-UGU----------AGCCGCUCGAGCUG- -5'
23504 3' -56 NC_005259.1 + 68121 0.78 0.167145
Target:  5'- -gGGUCGaGAGCAgCGGCGAGCUCGGCa -3'
miRNA:   3'- uaCUGGC-CUUGUaGCCGCUCGAGCUG- -5'
23504 3' -56 NC_005259.1 + 5632 0.75 0.24776
Target:  5'- -cGACCGGAuCGUgccCGGCGAGgaCGGCg -3'
miRNA:   3'- uaCUGGCCUuGUA---GCCGCUCgaGCUG- -5'
23504 3' -56 NC_005259.1 + 29400 0.74 0.281041
Target:  5'- --cACCGaGGGCcUCGGCGAGCUCGuGCg -3'
miRNA:   3'- uacUGGC-CUUGuAGCCGCUCGAGC-UG- -5'
23504 3' -56 NC_005259.1 + 66942 0.74 0.295315
Target:  5'- gGUGAgCGGGACAcCGGCGAGCUg--- -3'
miRNA:   3'- -UACUgGCCUUGUaGCCGCUCGAgcug -5'
23504 3' -56 NC_005259.1 + 62771 0.74 0.295315
Target:  5'- -gGGCCGGAACGUCGcGC-AGCUUGGu -3'
miRNA:   3'- uaCUGGCCUUGUAGC-CGcUCGAGCUg -5'
23504 3' -56 NC_005259.1 + 8377 0.74 0.302661
Target:  5'- -cGGCCucGGCAUCGGCGAGagcCUCGGCg -3'
miRNA:   3'- uaCUGGccUUGUAGCCGCUC---GAGCUG- -5'
23504 3' -56 NC_005259.1 + 41783 0.74 0.302661
Target:  5'- --cACCGG--CAUCGGCGAGCagUCGGCa -3'
miRNA:   3'- uacUGGCCuuGUAGCCGCUCG--AGCUG- -5'
23504 3' -56 NC_005259.1 + 60813 0.73 0.310147
Target:  5'- -aGGCCGGAAauCGUCGGCGAuGCU-GGCc -3'
miRNA:   3'- uaCUGGCCUU--GUAGCCGCU-CGAgCUG- -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.