miRNA display CGI


Results 21 - 39 of 39 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
23262 3' -63.1 NC_005259.1 + 15049 0.69 0.28125
Target:  5'- aGGGUGCCaUGGCcgauaccguggCCACCCUG-GCccuugaGCCg -3'
miRNA:   3'- -CCCACGG-GCCG-----------GGUGGGACaCGc-----UGG- -5'
23262 3' -63.1 NC_005259.1 + 8138 0.69 0.268315
Target:  5'- cGGGUGcCCCGcGCCCucguuGCUCUG-GCcauGGCCu -3'
miRNA:   3'- -CCCAC-GGGC-CGGG-----UGGGACaCG---CUGG- -5'
23262 3' -63.1 NC_005259.1 + 37045 0.7 0.243893
Target:  5'- uGGUGCCCGccaCCGCCCacgGCGGCg -3'
miRNA:   3'- cCCACGGGCcg-GGUGGGacaCGCUGg -5'
23262 3' -63.1 NC_005259.1 + 44508 0.7 0.226812
Target:  5'- gGGGUGCCCuGgCCACCCac-GCcGCCg -3'
miRNA:   3'- -CCCACGGGcCgGGUGGGacaCGcUGG- -5'
23262 3' -63.1 NC_005259.1 + 60257 0.7 0.221348
Target:  5'- cGGGUGCaaggCUGGCCaccaGCgCUGccggGCGGCCa -3'
miRNA:   3'- -CCCACG----GGCCGGg---UGgGACa---CGCUGG- -5'
23262 3' -63.1 NC_005259.1 + 66754 0.7 0.215996
Target:  5'- --cUGCCCGGCCUGCCa-GU-CGACCg -3'
miRNA:   3'- cccACGGGCCGGGUGGgaCAcGCUGG- -5'
23262 3' -63.1 NC_005259.1 + 67426 0.71 0.205624
Target:  5'- gGGGUGCCgGGCUCACgCUUGaGCGcgucggggauGCCc -3'
miRNA:   3'- -CCCACGGgCCGGGUG-GGACaCGC----------UGG- -5'
23262 3' -63.1 NC_005259.1 + 22843 0.71 0.195687
Target:  5'- ---gGCCCGGCCCACCCgcagccGCaACCu -3'
miRNA:   3'- cccaCGGGCCGGGUGGGaca---CGcUGG- -5'
23262 3' -63.1 NC_005259.1 + 15640 0.71 0.190877
Target:  5'- aGGacGCCCGuCCgAUCCUGUGCGACg -3'
miRNA:   3'- cCCa-CGGGCcGGgUGGGACACGCUGg -5'
23262 3' -63.1 NC_005259.1 + 26160 0.72 0.177066
Target:  5'- ---aGCCCGaaaauGCCCGCguCCUGUGCGAUCu -3'
miRNA:   3'- cccaCGGGC-----CGGGUG--GGACACGCUGG- -5'
23262 3' -63.1 NC_005259.1 + 912 0.72 0.168359
Target:  5'- uGGUGCCCGGCgaUCACCugcugCUGcGCGACa -3'
miRNA:   3'- cCCACGGGCCG--GGUGG-----GACaCGCUGg -5'
23262 3' -63.1 NC_005259.1 + 9794 0.72 0.15483
Target:  5'- cGGuGUGCCCGcucgcgccacuaccGCCCGCaCCgccggGUGCGGCg -3'
miRNA:   3'- -CC-CACGGGC--------------CGGGUG-GGa----CACGCUGg -5'
23262 3' -63.1 NC_005259.1 + 13095 0.73 0.140837
Target:  5'- cGGUGCCaccgacccCGGCCCGCUCg--GCGGCUa -3'
miRNA:   3'- cCCACGG--------GCCGGGUGGGacaCGCUGG- -5'
23262 3' -63.1 NC_005259.1 + 53542 0.73 0.140837
Target:  5'- cGGUGCCCGGUguCgGCUCgggcgGUGCGAUCc -3'
miRNA:   3'- cCCACGGGCCG--GgUGGGa----CACGCUGG- -5'
23262 3' -63.1 NC_005259.1 + 42474 0.74 0.114468
Target:  5'- cGGcgagGCCCGGCCCguagagccgugACCCguccggcgGUGUGGCCa -3'
miRNA:   3'- cCCa---CGGGCCGGG-----------UGGGa-------CACGCUGG- -5'
23262 3' -63.1 NC_005259.1 + 32905 0.75 0.103082
Target:  5'- aGGGUGagccaCCCGGCCCGCUCggGcGCGGCg -3'
miRNA:   3'- -CCCAC-----GGGCCGGGUGGGa-CaCGCUGg -5'
23262 3' -63.1 NC_005259.1 + 56409 0.76 0.091792
Target:  5'- uGGUGCCCGGCCCGCCgaGcucaagcagagcaGCGAgCg -3'
miRNA:   3'- cCCACGGGCCGGGUGGgaCa------------CGCUgG- -5'
23262 3' -63.1 NC_005259.1 + 25951 0.8 0.047473
Target:  5'- cGGUGCCCGGCCCGCcgacgCCUGcGaugaGACCg -3'
miRNA:   3'- cCCACGGGCCGGGUG-----GGACaCg---CUGG- -5'
23262 3' -63.1 NC_005259.1 + 33666 1.13 0.000139
Target:  5'- aGGGUGCCCGGCCCACCCUGUGCGACCa -3'
miRNA:   3'- -CCCACGGGCCGGGUGGGACACGCUGG- -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.