miRNA display CGI


Results 1 - 20 of 35 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
28164 5' -58.7 NC_005887.1 + 37330 0.66 0.461861
Target:  5'- aGCAGCGccGGCACUGGCaucGGUCgC-CG-Ca -3'
miRNA:   3'- gUGUCGC--UCGUGACCG---CCAG-GaGCuG- -5'
28164 5' -58.7 NC_005887.1 + 30806 0.66 0.461861
Target:  5'- aAUGGCGcGCACc-GCGG-CCUCGGCc -3'
miRNA:   3'- gUGUCGCuCGUGacCGCCaGGAGCUG- -5'
28164 5' -58.7 NC_005887.1 + 34696 0.66 0.451922
Target:  5'- aGCAGCGGGCggccgucgucgcGCUuGCGGUgCgCGGCg -3'
miRNA:   3'- gUGUCGCUCG------------UGAcCGCCAgGaGCUG- -5'
28164 5' -58.7 NC_005887.1 + 13676 0.66 0.451922
Target:  5'- -uCAGCG-GCGCgacgGGUGGgaUCUCGACc -3'
miRNA:   3'- guGUCGCuCGUGa---CCGCCa-GGAGCUG- -5'
28164 5' -58.7 NC_005887.1 + 36087 0.66 0.442102
Target:  5'- gUACAGCu-GCACguaGGCGGccauuUCCUCGuCg -3'
miRNA:   3'- -GUGUCGcuCGUGa--CCGCC-----AGGAGCuG- -5'
28164 5' -58.7 NC_005887.1 + 14551 0.66 0.42283
Target:  5'- cCGCGGCGGGCACgaucUGcGCGaGgCC-CGACa -3'
miRNA:   3'- -GUGUCGCUCGUG----AC-CGC-CaGGaGCUG- -5'
28164 5' -58.7 NC_005887.1 + 1230 0.66 0.42283
Target:  5'- --uGGCGGGCGCUGcGCGG-CgCUCaGCa -3'
miRNA:   3'- gugUCGCUCGUGAC-CGCCaG-GAGcUG- -5'
28164 5' -58.7 NC_005887.1 + 23502 0.66 0.413385
Target:  5'- aGCGGCGGGa--UGGCGGgcggCUgCGACg -3'
miRNA:   3'- gUGUCGCUCgugACCGCCa---GGaGCUG- -5'
28164 5' -58.7 NC_005887.1 + 5944 0.66 0.410577
Target:  5'- --gGGCGAGgugaucgauaagcuCGCUGGCGcGUCCggCGAUg -3'
miRNA:   3'- gugUCGCUC--------------GUGACCGC-CAGGa-GCUG- -5'
28164 5' -58.7 NC_005887.1 + 4738 0.67 0.385847
Target:  5'- cCGCcGCGAGCAauaccGGCGGUgCUuuugCGACg -3'
miRNA:   3'- -GUGuCGCUCGUga---CCGCCAgGA----GCUG- -5'
28164 5' -58.7 NC_005887.1 + 3682 0.67 0.376941
Target:  5'- uCACGGcCGaAGCGCUGcGCGG-CCU-GGCg -3'
miRNA:   3'- -GUGUC-GC-UCGUGAC-CGCCaGGAgCUG- -5'
28164 5' -58.7 NC_005887.1 + 10762 0.67 0.368175
Target:  5'- gCGCGGCGGGUACgaggGGCaGUCgUgGAUc -3'
miRNA:   3'- -GUGUCGCUCGUGa---CCGcCAGgAgCUG- -5'
28164 5' -58.7 NC_005887.1 + 5498 0.67 0.368174
Target:  5'- -cCAGCGGGCGCgUGGUcgcgccGGUCgCUgCGGCg -3'
miRNA:   3'- guGUCGCUCGUG-ACCG------CCAG-GA-GCUG- -5'
28164 5' -58.7 NC_005887.1 + 11827 0.67 0.365572
Target:  5'- gGCGGCGgccuguucucgagcAGCACgGGCGGaucgUUUUCGACg -3'
miRNA:   3'- gUGUCGC--------------UCGUGaCCGCC----AGGAGCUG- -5'
28164 5' -58.7 NC_005887.1 + 4384 0.68 0.334528
Target:  5'- uGCGGCauguccGGCAgCUGGcCGG-CCUCGGCg -3'
miRNA:   3'- gUGUCGc-----UCGU-GACC-GCCaGGAGCUG- -5'
28164 5' -58.7 NC_005887.1 + 1140 0.68 0.334528
Target:  5'- aCAuCAGUucGAGCAC--GCGGUCCuUCGACu -3'
miRNA:   3'- -GU-GUCG--CUCGUGacCGCCAGG-AGCUG- -5'
28164 5' -58.7 NC_005887.1 + 5827 0.68 0.326476
Target:  5'- uCGCGGCcAGCGCcuucGCGG-CCUCGGCc -3'
miRNA:   3'- -GUGUCGcUCGUGac--CGCCaGGAGCUG- -5'
28164 5' -58.7 NC_005887.1 + 12114 0.68 0.326476
Target:  5'- uGCAGCGcGGCGcCUGuGuuGUCUUCGACg -3'
miRNA:   3'- gUGUCGC-UCGU-GAC-CgcCAGGAGCUG- -5'
28164 5' -58.7 NC_005887.1 + 16060 0.68 0.317785
Target:  5'- uCGCGGCGGGU-CUGcGCGcGcacgacaUCCUCGACg -3'
miRNA:   3'- -GUGUCGCUCGuGAC-CGC-C-------AGGAGCUG- -5'
28164 5' -58.7 NC_005887.1 + 40825 0.69 0.303187
Target:  5'- gGCGGCGcgcGGCGCgccaacGGCGaucgCCUCGACg -3'
miRNA:   3'- gUGUCGC---UCGUGa-----CCGCca--GGAGCUG- -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.