miRNA display CGI


Results 1 - 20 of 37 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
26479 3' -53.6 NC_005357.1 + 19040 0.75 0.252583
Target:  5'- cCUGGuAGCGGCCgCCGGCGgCGUCGAUc -3'
miRNA:   3'- uGACC-UUGUUGG-GGCUGCgGUAGUUA- -5'
26479 3' -53.6 NC_005357.1 + 29982 0.66 0.727848
Target:  5'- cCUGGAuGCAGCCgUCGAacggGCCAUCGu- -3'
miRNA:   3'- uGACCU-UGUUGG-GGCUg---CGGUAGUua -5'
26479 3' -53.6 NC_005357.1 + 11857 0.66 0.727848
Target:  5'- cCUGGGcgAACCCCG-CGCCAauaUCGc- -3'
miRNA:   3'- uGACCUugUUGGGGCuGCGGU---AGUua -5'
26479 3' -53.6 NC_005357.1 + 11826 0.66 0.727848
Target:  5'- gACUGGAACAGaCCggCCG-CGCCG-CGGUu -3'
miRNA:   3'- -UGACCUUGUU-GG--GGCuGCGGUaGUUA- -5'
26479 3' -53.6 NC_005357.1 + 9169 0.66 0.705559
Target:  5'- gGCcGGcAGCGACaaCuuGGCGCCGUCGAc -3'
miRNA:   3'- -UGaCC-UUGUUG--GggCUGCGGUAGUUa -5'
26479 3' -53.6 NC_005357.1 + 39987 0.66 0.671573
Target:  5'- cCUGGGccGCAGuuUCGGCGCCuUCAAa -3'
miRNA:   3'- uGACCU--UGUUggGGCUGCGGuAGUUa -5'
26479 3' -53.6 NC_005357.1 + 38602 0.68 0.602823
Target:  5'- cGCUGGAuuggucgcaacgGCGcCCCCGAcCGCCugGUCAu- -3'
miRNA:   3'- -UGACCU------------UGUuGGGGCU-GCGG--UAGUua -5'
26479 3' -53.6 NC_005357.1 + 36135 0.68 0.602823
Target:  5'- cACcGGAGauaAGCCCCGGCGCCc-CAGc -3'
miRNA:   3'- -UGaCCUUg--UUGGGGCUGCGGuaGUUa -5'
26479 3' -53.6 NC_005357.1 + 32968 0.69 0.546163
Target:  5'- uACUGGcaaGACCCgGACGCCAa---- -3'
miRNA:   3'- -UGACCuugUUGGGgCUGCGGUaguua -5'
26479 3' -53.6 NC_005357.1 + 37163 0.7 0.439149
Target:  5'- cGCUGGAACGacgcauugccgACCCCGACcuGCCGgcCGAa -3'
miRNA:   3'- -UGACCUUGU-----------UGGGGCUG--CGGUa-GUUa -5'
26479 3' -53.6 NC_005357.1 + 28683 0.69 0.52395
Target:  5'- cGCUGGAACAAaacaaCCCGACcuauGCC-UCGGc -3'
miRNA:   3'- -UGACCUUGUUg----GGGCUG----CGGuAGUUa -5'
26479 3' -53.6 NC_005357.1 + 41829 0.69 0.512972
Target:  5'- uGCUGGc-CGACCCgcaGGCGgCCAUCAAa -3'
miRNA:   3'- -UGACCuuGUUGGGg--CUGC-GGUAGUUa -5'
26479 3' -53.6 NC_005357.1 + 12336 0.69 0.512972
Target:  5'- cCUGGGACAagggccguggcGCCCgGGCGCCG-CAc- -3'
miRNA:   3'- uGACCUUGU-----------UGGGgCUGCGGUaGUua -5'
26479 3' -53.6 NC_005357.1 + 38135 0.69 0.502091
Target:  5'- aGCUGGuGCAguucACCgCCGACacgGCCAUCAc- -3'
miRNA:   3'- -UGACCuUGU----UGG-GGCUG---CGGUAGUua -5'
26479 3' -53.6 NC_005357.1 + 33486 0.7 0.48064
Target:  5'- uGCUGGAACAguucgGCgaacuguccacgCCCGAaGCCAUCGAg -3'
miRNA:   3'- -UGACCUUGU-----UG------------GGGCUgCGGUAGUUa -5'
26479 3' -53.6 NC_005357.1 + 33195 0.7 0.470083
Target:  5'- aACUGGAACuGCCgCCGggcGCGCCG-CAGa -3'
miRNA:   3'- -UGACCUUGuUGG-GGC---UGCGGUaGUUa -5'
26479 3' -53.6 NC_005357.1 + 13067 0.71 0.429098
Target:  5'- gGCUGGGGCAagGCCaCCGGCGCgugguUCGAg -3'
miRNA:   3'- -UGACCUUGU--UGG-GGCUGCGgu---AGUUa -5'
26479 3' -53.6 NC_005357.1 + 40367 0.72 0.345132
Target:  5'- uGCUGGGcgACGACCCCGaggaauugcGCGCCGUg--- -3'
miRNA:   3'- -UGACCU--UGUUGGGGC---------UGCGGUAguua -5'
26479 3' -53.6 NC_005357.1 + 19991 0.73 0.303845
Target:  5'- aACUGG-ACGAgUCCGcCGCCGUCAAg -3'
miRNA:   3'- -UGACCuUGUUgGGGCuGCGGUAGUUa -5'
26479 3' -53.6 NC_005357.1 + 37129 0.66 0.727848
Target:  5'- cCUGGAAaauauCGACgCCGugGCCGaCAAc -3'
miRNA:   3'- uGACCUU-----GUUGgGGCugCGGUaGUUa -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.