miRNA display CGI


Results 1 - 20 of 85 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
23380 3' -59.4 NC_005259.1 + 30801 0.78 0.111841
Target:  5'- aCCGCcggaacaccuGAGUCGGGU-AGUCCGGCGcGCCg -3'
miRNA:   3'- -GGCG----------CUCAGCCCGuUCGGGCCGU-UGG- -5'
23380 3' -59.4 NC_005259.1 + 22365 0.75 0.170241
Target:  5'- gUCGCGAcgacaaGGGCAaaAGCCCGGuCGGCCu -3'
miRNA:   3'- -GGCGCUcag---CCCGU--UCGGGCC-GUUGG- -5'
23380 3' -59.4 NC_005259.1 + 64017 0.75 0.174678
Target:  5'- aCCGCgcccGAGgCGcGGCGAGgCCGGUGACCg -3'
miRNA:   3'- -GGCG----CUCaGC-CCGUUCgGGCCGUUGG- -5'
23380 3' -59.4 NC_005259.1 + 45626 0.74 0.208711
Target:  5'- cCCGcCGGGcCGGGCAGcGCgCCGGUGccGCCg -3'
miRNA:   3'- -GGC-GCUCaGCCCGUU-CG-GGCCGU--UGG- -5'
23380 3' -59.4 NC_005259.1 + 68300 0.74 0.214015
Target:  5'- aUCGgGA-UCGGGCGcGUCCGGCGACg -3'
miRNA:   3'- -GGCgCUcAGCCCGUuCGGGCCGUUGg -5'
23380 3' -59.4 NC_005259.1 + 16524 0.73 0.224973
Target:  5'- gCUGCGAGcgucgcucaaGGGUgcGCCCGaGCGACCa -3'
miRNA:   3'- -GGCGCUCag--------CCCGuuCGGGC-CGUUGG- -5'
23380 3' -59.4 NC_005259.1 + 20451 0.73 0.224973
Target:  5'- aCGaCGAGcCGGGguGGCUCGGaUGACCg -3'
miRNA:   3'- gGC-GCUCaGCCCguUCGGGCC-GUUGG- -5'
23380 3' -59.4 NC_005259.1 + 937 0.73 0.230628
Target:  5'- gCGCGAcagcggaaaaGUCGGGC-AGCUCGcGCAACg -3'
miRNA:   3'- gGCGCU----------CAGCCCGuUCGGGC-CGUUGg -5'
23380 3' -59.4 NC_005259.1 + 26438 0.73 0.236402
Target:  5'- aCCGcCGAG-CGGGCGGGCC-GGUgGGCCg -3'
miRNA:   3'- -GGC-GCUCaGCCCGUUCGGgCCG-UUGG- -5'
23380 3' -59.4 NC_005259.1 + 4261 0.72 0.271656
Target:  5'- aCUGCGAGgacaaCGGGCGgcugcgcugccacgAGCacggaCCGGCGGCCc -3'
miRNA:   3'- -GGCGCUCa----GCCCGU--------------UCG-----GGCCGUUGG- -5'
23380 3' -59.4 NC_005259.1 + 23289 0.72 0.293933
Target:  5'- gCGCGguGGUUGGGUAucggGGUCCGGCGcggucggugucGCCg -3'
miRNA:   3'- gGCGC--UCAGCCCGU----UCGGGCCGU-----------UGG- -5'
23380 3' -59.4 NC_005259.1 + 66737 0.72 0.293933
Target:  5'- aCGCG-GUCaGGCugaugcuGCCCGGCcuGCCa -3'
miRNA:   3'- gGCGCuCAGcCCGuu-----CGGGCCGu-UGG- -5'
23380 3' -59.4 NC_005259.1 + 15589 0.71 0.300959
Target:  5'- gCGCGA--CGGGCcgcauGAGCUaCGGCAGCCc -3'
miRNA:   3'- gGCGCUcaGCCCG-----UUCGG-GCCGUUGG- -5'
23380 3' -59.4 NC_005259.1 + 33103 0.71 0.300959
Target:  5'- cCCGCGAG-CGuGCcuguaGGGCCacgCGGCAGCCg -3'
miRNA:   3'- -GGCGCUCaGCcCG-----UUCGG---GCCGUUGG- -5'
23380 3' -59.4 NC_005259.1 + 17472 0.71 0.3132
Target:  5'- aCCGUG-GUgacgcccggccaugCGGGCAAGgaCGGCGACCu -3'
miRNA:   3'- -GGCGCuCA--------------GCCCGUUCggGCCGUUGG- -5'
23380 3' -59.4 NC_005259.1 + 52895 0.71 0.322813
Target:  5'- gCGCGAGUaCGGGCAccuGCUCa-CGACCg -3'
miRNA:   3'- gGCGCUCA-GCCCGUu--CGGGccGUUGG- -5'
23380 3' -59.4 NC_005259.1 + 27355 0.71 0.322813
Target:  5'- gCCGUacuGA-UCGGGCuugguGCCCGGCAcggugACCg -3'
miRNA:   3'- -GGCG---CUcAGCCCGuu---CGGGCCGU-----UGG- -5'
23380 3' -59.4 NC_005259.1 + 45542 0.71 0.330356
Target:  5'- gCUGCGAG-CGGGUugcucGCCgGGCcACCc -3'
miRNA:   3'- -GGCGCUCaGCCCGuu---CGGgCCGuUGG- -5'
23380 3' -59.4 NC_005259.1 + 43718 0.71 0.338028
Target:  5'- aCCGCaucGAGUCGauGGCGgccaugccgccgAGCCgGGCAACa -3'
miRNA:   3'- -GGCG---CUCAGC--CCGU------------UCGGgCCGUUGg -5'
23380 3' -59.4 NC_005259.1 + 60589 0.7 0.345828
Target:  5'- aCgGCGAGUCGGGUgccgucaucGAGCagcacaGGCGGCg -3'
miRNA:   3'- -GgCGCUCAGCCCG---------UUCGgg----CCGUUGg -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.