miRNA display CGI


Results 1 - 20 of 48 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
23040 3' -56.4 NC_005178.1 + 6912 0.66 0.518834
Target:  5'- aGCUGCUcGccGCUgagGUGGCCcGCAGCAg -3'
miRNA:   3'- -CGACGGuCuuCGG---CAUUGGcCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 19684 0.67 0.445338
Target:  5'- gGCUugGCCAGAAGauGgcGCCGGaCGGUu -3'
miRNA:   3'- -CGA--CGGUCUUCggCauUGGCC-GUCGu -5'
23040 3' -56.4 NC_005178.1 + 8571 0.67 0.445338
Target:  5'- -aUGCCGcAGGCCG-AGCCGGCcccaacuGCAc -3'
miRNA:   3'- cgACGGUcUUCGGCaUUGGCCGu------CGU- -5'
23040 3' -56.4 NC_005178.1 + 24563 0.67 0.445338
Target:  5'- uGCUGgacaCCAGcAAGCCGgauACCGGCGa-- -3'
miRNA:   3'- -CGAC----GGUC-UUCGGCau-UGGCCGUcgu -5'
23040 3' -56.4 NC_005178.1 + 25365 0.67 0.455492
Target:  5'- gGCUgGCCGGGAGCUGU--CCGGUuugggggagacAGCc -3'
miRNA:   3'- -CGA-CGGUCUUCGGCAuuGGCCG-----------UCGu -5'
23040 3' -56.4 NC_005178.1 + 10593 0.67 0.476165
Target:  5'- --gGCCgAGcGAGCCGgcACCG-CAGCAa -3'
miRNA:   3'- cgaCGG-UC-UUCGGCauUGGCcGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 6952 0.66 0.49091
Target:  5'- --aGCCGGcgaggcaaucggcauGAGCCGUucGACCG-CAGCAc -3'
miRNA:   3'- cgaCGGUC---------------UUCGGCA--UUGGCcGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 22267 0.66 0.497294
Target:  5'- --cGCCAGGcuGGCCc--GCCaGGCGGCGg -3'
miRNA:   3'- cgaCGGUCU--UCGGcauUGG-CCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 9461 0.66 0.517748
Target:  5'- uCUGCCGGAcGUgGUGGuCCGGUacugaugAGCAg -3'
miRNA:   3'- cGACGGUCUuCGgCAUU-GGCCG-------UCGU- -5'
23040 3' -56.4 NC_005178.1 + 10227 0.68 0.413724
Target:  5'- uGCUGCCGGAuaccguccgcgacauGGCCGgacgcaucggccuGCCGGCcacGCu -3'
miRNA:   3'- -CGACGGUCU---------------UCGGCau-----------UGGCCGu--CGu -5'
23040 3' -56.4 NC_005178.1 + 9659 0.68 0.406039
Target:  5'- cGCgGCCGGuggcuucGCCG-AGCCGGCcgaGGCGg -3'
miRNA:   3'- -CGaCGGUCuu-----CGGCaUUGGCCG---UCGU- -5'
23040 3' -56.4 NC_005178.1 + 7418 0.68 0.387225
Target:  5'- gGCUuCCAGcgcgacGCCucGGCCGGCAGCAc -3'
miRNA:   3'- -CGAcGGUCuu----CGGcaUUGGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 28307 0.76 0.114955
Target:  5'- aGCUGCCGG-GGCCGcuggagUGGCUGGUGGCGg -3'
miRNA:   3'- -CGACGGUCuUCGGC------AUUGGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 25842 0.74 0.153185
Target:  5'- --cGCCAu-GGCCGUGGCCGGCauuucGGCAg -3'
miRNA:   3'- cgaCGGUcuUCGGCAUUGGCCG-----UCGU- -5'
23040 3' -56.4 NC_005178.1 + 10831 0.72 0.208236
Target:  5'- uCUGCUGGAAGCCugcccgGUcAACUGGCAGCc -3'
miRNA:   3'- cGACGGUCUUCGG------CA-UUGGCCGUCGu -5'
23040 3' -56.4 NC_005178.1 + 25626 0.71 0.237852
Target:  5'- gGCUGCgGcGAAagccaccGCCGaguucGACCGGCAGCAg -3'
miRNA:   3'- -CGACGgU-CUU-------CGGCa----UUGGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 16657 0.7 0.309936
Target:  5'- cGCUGCCAgccaauggcGAGGCgGUccugggcgaucaGGCCGGCgcaGGCAu -3'
miRNA:   3'- -CGACGGU---------CUUCGgCA------------UUGGCCG---UCGU- -5'
23040 3' -56.4 NC_005178.1 + 16190 0.69 0.351358
Target:  5'- cCUGCUgcGAGCgGUGACCGGCcucGGCc -3'
miRNA:   3'- cGACGGucUUCGgCAUUGGCCG---UCGu -5'
23040 3' -56.4 NC_005178.1 + 22163 0.69 0.3601
Target:  5'- uGCUGCCGGuuacGGCUu---CUGGCAGCu -3'
miRNA:   3'- -CGACGGUCu---UCGGcauuGGCCGUCGu -5'
23040 3' -56.4 NC_005178.1 + 20919 0.68 0.372592
Target:  5'- cGCU-CCAGGAcGCCGaggucaucggcguGCCGGUAGCGg -3'
miRNA:   3'- -CGAcGGUCUU-CGGCau-----------UGGCCGUCGU- -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.