miRNA display CGI


Results 1 - 20 of 53 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
23319 5' -64.9 NC_005259.1 + 60152 0.66 0.315625
Target:  5'- uGGC-CGCCGCCUcaGC-GGCCucacGGGCGGc -3'
miRNA:   3'- -CCGcGUGGCGGG--CGaCCGG----CCCGUUa -5'
23319 5' -64.9 NC_005259.1 + 2164 0.66 0.315625
Target:  5'- cGGCGUcgaGCCGCCgGUUgccgaggucaugGGCCGcuacGGCAAg -3'
miRNA:   3'- -CCGCG---UGGCGGgCGA------------CCGGC----CCGUUa -5'
23319 5' -64.9 NC_005259.1 + 32900 0.66 0.315625
Target:  5'- gGGCGagggugagcCACCcgGCCCGCUcGGgCGcGGCGGUa -3'
miRNA:   3'- -CCGC---------GUGG--CGGGCGA-CCgGC-CCGUUA- -5'
23319 5' -64.9 NC_005259.1 + 58777 0.66 0.315625
Target:  5'- cGgGCGCUGUgCGCcGGUCGaGGCGGUg -3'
miRNA:   3'- cCgCGUGGCGgGCGaCCGGC-CCGUUA- -5'
23319 5' -64.9 NC_005259.1 + 54200 0.66 0.314901
Target:  5'- aGGCG-GCgGCCCuugacggGCUGGauaCCGGGCAu- -3'
miRNA:   3'- -CCGCgUGgCGGG-------CGACC---GGCCCGUua -5'
23319 5' -64.9 NC_005259.1 + 15538 0.66 0.308435
Target:  5'- aGGC-CGCCGUCa-CUGGCCGGuGCc-- -3'
miRNA:   3'- -CCGcGUGGCGGgcGACCGGCC-CGuua -5'
23319 5' -64.9 NC_005259.1 + 3511 0.66 0.308435
Target:  5'- uGUGCGCCGCCgCGUUcaaCGGGCAc- -3'
miRNA:   3'- cCGCGUGGCGG-GCGAccgGCCCGUua -5'
23319 5' -64.9 NC_005259.1 + 14777 0.66 0.308435
Target:  5'- -aCGCGCCGUucgacaucccuCCGCUGuuccacGCCGGGCu-- -3'
miRNA:   3'- ccGCGUGGCG-----------GGCGAC------CGGCCCGuua -5'
23319 5' -64.9 NC_005259.1 + 30362 0.66 0.30137
Target:  5'- uGGaCGCcgauCUGCCCGCU-GCCcGGCGAg -3'
miRNA:   3'- -CC-GCGu---GGCGGGCGAcCGGcCCGUUa -5'
23319 5' -64.9 NC_005259.1 + 52246 0.66 0.295118
Target:  5'- ---cUACCGCCCGgccccucucaggggGGCCGGGCAGa -3'
miRNA:   3'- ccgcGUGGCGGGCga------------CCGGCCCGUUa -5'
23319 5' -64.9 NC_005259.1 + 68849 0.66 0.293743
Target:  5'- aGGUGgGCCaucaugucgacuuGCCCGC--GCCGGGCGc- -3'
miRNA:   3'- -CCGCgUGG-------------CGGGCGacCGGCCCGUua -5'
23319 5' -64.9 NC_005259.1 + 45018 0.66 0.290326
Target:  5'- gGGcCGCGCCGCCCuGCUucaugagcugcucgcGGuaCCGGGuCAAc -3'
miRNA:   3'- -CC-GCGUGGCGGG-CGA---------------CC--GGCCC-GUUa -5'
23319 5' -64.9 NC_005259.1 + 51502 0.66 0.290326
Target:  5'- aGGuCGaCGCCGCCgaucucgacgcgCGUgaccucgugcacggGGCCGGGCAAg -3'
miRNA:   3'- -CC-GC-GUGGCGG------------GCGa-------------CCGGCCCGUUa -5'
23319 5' -64.9 NC_005259.1 + 3313 0.66 0.287615
Target:  5'- aGCGCugCGUCgaCGUgagcGCCGGGCAGc -3'
miRNA:   3'- cCGCGugGCGG--GCGac--CGGCCCGUUa -5'
23319 5' -64.9 NC_005259.1 + 25951 0.66 0.280926
Target:  5'- cGGUGC-CCgGCCCGCcgacgccugcgaUGaGaCCGGGCAGc -3'
miRNA:   3'- -CCGCGuGG-CGGGCG------------AC-C-GGCCCGUUa -5'
23319 5' -64.9 NC_005259.1 + 17761 0.67 0.267918
Target:  5'- aGGC-CGCCGCgCGCcgGGCCGaGcGCAc- -3'
miRNA:   3'- -CCGcGUGGCGgGCGa-CCGGC-C-CGUua -5'
23319 5' -64.9 NC_005259.1 + 7856 0.67 0.264112
Target:  5'- cGGacCGCGCCGacCCCGgUGGCCcgagugcuuggacucGGGCAGc -3'
miRNA:   3'- -CC--GCGUGGC--GGGCgACCGG---------------CCCGUUa -5'
23319 5' -64.9 NC_005259.1 + 60227 0.67 0.261599
Target:  5'- cGGCGCugaGCUCGCUGGCacgcuugcgugCGGGUg-- -3'
miRNA:   3'- -CCGCGuggCGGGCGACCG-----------GCCCGuua -5'
23319 5' -64.9 NC_005259.1 + 26666 0.67 0.261599
Target:  5'- cGGCGCACCcggcggcaGCCCGCccaucgaGGCgGGGa--- -3'
miRNA:   3'- -CCGCGUGG--------CGGGCGa------CCGgCCCguua -5'
23319 5' -64.9 NC_005259.1 + 35250 0.67 0.255401
Target:  5'- uGCGCACucgcguuguucgCGCCCGCcGcGCCGGGg--- -3'
miRNA:   3'- cCGCGUG------------GCGGGCGaC-CGGCCCguua -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.