miRNA display CGI


Results 1 - 20 of 29 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
27588 3' -55.9 NC_005882.1 + 162 0.67 0.539605
Target:  5'- aGGCaagGCUCGCGaGgagacagugGUCAACGGUGGAa- -3'
miRNA:   3'- -CCG---UGGGUGC-Ca--------UAGUUGCCGCCUgu -5'
27588 3' -55.9 NC_005882.1 + 3443 0.69 0.419954
Target:  5'- uGGCGCCCAUGucagacucccuugAUCAcguCGGCGGugAc -3'
miRNA:   3'- -CCGUGGGUGCca-----------UAGUu--GCCGCCugU- -5'
27588 3' -55.9 NC_005882.1 + 7265 0.66 0.550526
Target:  5'- uGGUACCCgaGCuGUGUagCGACGGCucGGACu -3'
miRNA:   3'- -CCGUGGG--UGcCAUA--GUUGCCG--CCUGu -5'
27588 3' -55.9 NC_005882.1 + 7699 0.67 0.496732
Target:  5'- aGGCGCUCGCGGgcggcGUCGaggcuACGGaGGAUg -3'
miRNA:   3'- -CCGUGGGUGCCa----UAGU-----UGCCgCCUGu -5'
27588 3' -55.9 NC_005882.1 + 8229 0.67 0.517992
Target:  5'- cGGCACCgCACGcGUccUCgAACGGcCGGAUc -3'
miRNA:   3'- -CCGUGG-GUGC-CAu-AG-UUGCC-GCCUGu -5'
27588 3' -55.9 NC_005882.1 + 9052 0.72 0.267168
Target:  5'- aGCuCCgCGCGGgcuUCAGCGGCGGuACGc -3'
miRNA:   3'- cCGuGG-GUGCCau-AGUUGCCGCC-UGU- -5'
27588 3' -55.9 NC_005882.1 + 9362 0.7 0.344013
Target:  5'- cGGCAaUCAUGcGUGUCGG-GGCGGACGu -3'
miRNA:   3'- -CCGUgGGUGC-CAUAGUUgCCGCCUGU- -5'
27588 3' -55.9 NC_005882.1 + 10672 0.66 0.561514
Target:  5'- cGGCAgCgGCGGa---GGCGGCGG-CAg -3'
miRNA:   3'- -CCGUgGgUGCCauagUUGCCGCCuGU- -5'
27588 3' -55.9 NC_005882.1 + 11988 0.68 0.432584
Target:  5'- cGCGgCCACGGgcgCGGCGGCGccgagcaacgcgacGACAa -3'
miRNA:   3'- cCGUgGGUGCCauaGUUGCCGC--------------CUGU- -5'
27588 3' -55.9 NC_005882.1 + 12190 0.77 0.113811
Target:  5'- aGGCGCCCGCGauccaGUCGACGGUcgaGGGCAu -3'
miRNA:   3'- -CCGUGGGUGCca---UAGUUGCCG---CCUGU- -5'
27588 3' -55.9 NC_005882.1 + 12226 0.69 0.397234
Target:  5'- cGGCACCuCugGGagcgCAucACGGCGGcCGg -3'
miRNA:   3'- -CCGUGG-GugCCaua-GU--UGCCGCCuGU- -5'
27588 3' -55.9 NC_005882.1 + 12950 0.69 0.397234
Target:  5'- cGGCGCCgGCGG---CGGCGuuccacacGCGGACAa -3'
miRNA:   3'- -CCGUGGgUGCCauaGUUGC--------CGCCUGU- -5'
27588 3' -55.9 NC_005882.1 + 13077 0.69 0.378914
Target:  5'- cGGCugCgGCGGcuggcGUCGACguGGUGGGCGa -3'
miRNA:   3'- -CCGugGgUGCCa----UAGUUG--CCGCCUGU- -5'
27588 3' -55.9 NC_005882.1 + 14414 0.67 0.507315
Target:  5'- cGGCGCaCCauuucugcugauACGGcagCAggACGGCGGGCGc -3'
miRNA:   3'- -CCGUG-GG------------UGCCauaGU--UGCCGCCUGU- -5'
27588 3' -55.9 NC_005882.1 + 15215 0.67 0.539605
Target:  5'- cGGCGCUCcCGGUcgacgcccgcucGUaCAACGGCgaGGACu -3'
miRNA:   3'- -CCGUGGGuGCCA------------UA-GUUGCCG--CCUGu -5'
27588 3' -55.9 NC_005882.1 + 17056 1.11 0.00043
Target:  5'- cGGCACCCACGGUAUCAACGGCGGACAc -3'
miRNA:   3'- -CCGUGGGUGCCAUAGUUGCCGCCUGU- -5'
27588 3' -55.9 NC_005882.1 + 17153 0.67 0.539605
Target:  5'- aGCGCCUGCGcGUcggcauUCAggucGCGcGCGGACAa -3'
miRNA:   3'- cCGUGGGUGC-CAu-----AGU----UGC-CGCCUGU- -5'
27588 3' -55.9 NC_005882.1 + 18009 0.66 0.561514
Target:  5'- cGGCuggagcuacaACCC-CGGUG-CcGCGGCGuGGCAg -3'
miRNA:   3'- -CCG----------UGGGuGCCAUaGuUGCCGC-CUGU- -5'
27588 3' -55.9 NC_005882.1 + 22471 0.68 0.455461
Target:  5'- uGGgGCgCGCGGgcuugGUCGACGGCGcuGCGg -3'
miRNA:   3'- -CCgUGgGUGCCa----UAGUUGCCGCc-UGU- -5'
27588 3' -55.9 NC_005882.1 + 22944 0.68 0.435531
Target:  5'- cGGCACgauUCGCcgGGUG-CGACGGCGGcCAa -3'
miRNA:   3'- -CCGUG---GGUG--CCAUaGUUGCCGCCuGU- -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.