miRNA display CGI


Results 1 - 20 of 31 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
1655 3' -50.2 NC_001347.2 + 121079 1.1 0.013684
Target:  5'- aCGACACGCAAGGCGUCAUCAACAUCAu -3'
miRNA:   3'- -GCUGUGCGUUCCGCAGUAGUUGUAGU- -5'
1655 3' -50.2 NC_001347.2 + 6325 0.76 0.827406
Target:  5'- aCGGcCGCGCAAGGCGUgAUCAcgccagGCGUUg -3'
miRNA:   3'- -GCU-GUGCGUUCCGCAgUAGU------UGUAGu -5'
1655 3' -50.2 NC_001347.2 + 229419 0.72 0.958222
Target:  5'- aCGACACGCAccggcAGuGCG-CAggCAGCGUCGg -3'
miRNA:   3'- -GCUGUGCGU-----UC-CGCaGUa-GUUGUAGU- -5'
1655 3' -50.2 NC_001347.2 + 204822 0.7 0.97648
Target:  5'- aGACcguuccaACGCAacauugAGGUGUCAUUGACGUCu -3'
miRNA:   3'- gCUG-------UGCGU------UCCGCAGUAGUUGUAGu -5'
1655 3' -50.2 NC_001347.2 + 164753 0.7 0.981288
Target:  5'- uGGCAgGCAAcGGCGg---CAGCGUCAg -3'
miRNA:   3'- gCUGUgCGUU-CCGCaguaGUUGUAGU- -5'
1655 3' -50.2 NC_001347.2 + 77324 0.7 0.981288
Target:  5'- gCGGCguggAUGaCGAGGcCGUCAUCGACAUUu -3'
miRNA:   3'- -GCUG----UGC-GUUCC-GCAGUAGUUGUAGu -5'
1655 3' -50.2 NC_001347.2 + 127073 0.7 0.9833
Target:  5'- cCGGCACGCuaacGCGUUAcucgCAACGUCGc -3'
miRNA:   3'- -GCUGUGCGuuc-CGCAGUa---GUUGUAGU- -5'
1655 3' -50.2 NC_001347.2 + 148710 0.7 0.985143
Target:  5'- -uGC-CGCGAGGUGUCAuguUCGACgGUCAg -3'
miRNA:   3'- gcUGuGCGUUCCGCAGU---AGUUG-UAGU- -5'
1655 3' -50.2 NC_001347.2 + 52830 0.7 0.985143
Target:  5'- aCGugAC-CGAGGUGUCGUUgcuCAUCAg -3'
miRNA:   3'- -GCugUGcGUUCCGCAGUAGuu-GUAGU- -5'
1655 3' -50.2 NC_001347.2 + 99791 0.69 0.986828
Target:  5'- uGugACGCuAGGCGUCGaUAACA-CAg -3'
miRNA:   3'- gCugUGCGuUCCGCAGUaGUUGUaGU- -5'
1655 3' -50.2 NC_001347.2 + 95101 0.69 0.986828
Target:  5'- aGGCGCcCGAGGCGUCG-CAcaugACGUCu -3'
miRNA:   3'- gCUGUGcGUUCCGCAGUaGU----UGUAGu -5'
1655 3' -50.2 NC_001347.2 + 134880 0.69 0.988361
Target:  5'- uCGACACGCcGGGUGggacgGUCGugGUCu -3'
miRNA:   3'- -GCUGUGCGuUCCGCag---UAGUugUAGu -5'
1655 3' -50.2 NC_001347.2 + 156339 0.69 0.988361
Target:  5'- uGGUGCGCAAauccaauucGGCGUCGgucuUCAACAUCGa -3'
miRNA:   3'- gCUGUGCGUU---------CCGCAGU----AGUUGUAGU- -5'
1655 3' -50.2 NC_001347.2 + 195079 0.69 0.992143
Target:  5'- gGACGCGCAuGGCGgCAUUcACGUa- -3'
miRNA:   3'- gCUGUGCGUuCCGCaGUAGuUGUAgu -5'
1655 3' -50.2 NC_001347.2 + 87887 0.68 0.994068
Target:  5'- gGAUGCGUAAGGCG-CAagAACAUa- -3'
miRNA:   3'- gCUGUGCGUUCCGCaGUagUUGUAgu -5'
1655 3' -50.2 NC_001347.2 + 158026 0.68 0.994068
Target:  5'- gGACACGC-GGGCGcCGgacagCAggcGCGUCAc -3'
miRNA:   3'- gCUGUGCGuUCCGCaGUa----GU---UGUAGU- -5'
1655 3' -50.2 NC_001347.2 + 15240 0.67 0.996783
Target:  5'- uCGACACcgGCGuuuugAGcGCGagCGUCAACGUCAg -3'
miRNA:   3'- -GCUGUG--CGU-----UC-CGCa-GUAGUUGUAGU- -5'
1655 3' -50.2 NC_001347.2 + 129891 0.67 0.996783
Target:  5'- gGAgACGguGGGCGgcaugCGUCAGCuacucuUCAa -3'
miRNA:   3'- gCUgUGCguUCCGCa----GUAGUUGu-----AGU- -5'
1655 3' -50.2 NC_001347.2 + 104350 0.67 0.997694
Target:  5'- cCGGCACGCGGccGGCGUagaaCGGCcgCAa -3'
miRNA:   3'- -GCUGUGCGUU--CCGCAgua-GUUGuaGU- -5'
1655 3' -50.2 NC_001347.2 + 62690 0.67 0.998062
Target:  5'- gGACGgGCAGGaCGUCAaCcACGUCAa -3'
miRNA:   3'- gCUGUgCGUUCcGCAGUaGuUGUAGU- -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.