miRNA display CGI


Results 1 - 20 of 54 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
29607 3' -52.1 NC_006151.1 + 137239 0.78 0.493142
Target:  5'- aUCGUCCUCGACGUCGacuuucGCCUCGcGCGc -3'
miRNA:   3'- aGGUAGGAGUUGCAGU------UGGAGU-CGCu -5'
29607 3' -52.1 NC_006151.1 + 62086 0.76 0.564128
Target:  5'- gUCGUCCUCGGCGcggUCGGCCUgGGCGc -3'
miRNA:   3'- aGGUAGGAGUUGC---AGUUGGAgUCGCu -5'
29607 3' -52.1 NC_006151.1 + 94269 0.75 0.648055
Target:  5'- -aCGUCCUUGGCGUCGucGCC-CAGCGGc -3'
miRNA:   3'- agGUAGGAGUUGCAGU--UGGaGUCGCU- -5'
29607 3' -52.1 NC_006151.1 + 50689 0.75 0.658575
Target:  5'- gCCG-CCgcggCAGCGUCcacGCCUCGGCGAc -3'
miRNA:   3'- aGGUaGGa---GUUGCAGu--UGGAGUCGCU- -5'
29607 3' -52.1 NC_006151.1 + 117318 0.75 0.658575
Target:  5'- gCCAcgCCgagggCGGCGUCGGCCUCGGCc- -3'
miRNA:   3'- aGGUa-GGa----GUUGCAGUUGGAGUCGcu -5'
29607 3' -52.1 NC_006151.1 + 131794 0.74 0.700336
Target:  5'- gCCGUCgUCAGCGcgccauccuccUCGGCCUCGGCu- -3'
miRNA:   3'- aGGUAGgAGUUGC-----------AGUUGGAGUCGcu -5'
29607 3' -52.1 NC_006151.1 + 22229 0.74 0.700336
Target:  5'- aCCGUCgUCAGCGUCAGCUgccacgacUCGGUGu -3'
miRNA:   3'- aGGUAGgAGUUGCAGUUGG--------AGUCGCu -5'
29607 3' -52.1 NC_006151.1 + 92253 0.74 0.710648
Target:  5'- gUCCAccgCCUCuGCGUCAACCUCAuccGCc- -3'
miRNA:   3'- -AGGUa--GGAGuUGCAGUUGGAGU---CGcu -5'
29607 3' -52.1 NC_006151.1 + 64830 0.73 0.741122
Target:  5'- cUCC-UCCUCGaggauguccccgGCGagGGCCUCGGCGGa -3'
miRNA:   3'- -AGGuAGGAGU------------UGCagUUGGAGUCGCU- -5'
29607 3' -52.1 NC_006151.1 + 125489 0.73 0.741122
Target:  5'- gCCAgcgcgUCUCGGCGcgCAugCUCGGCGAc -3'
miRNA:   3'- aGGUa----GGAGUUGCa-GUugGAGUCGCU- -5'
29607 3' -52.1 NC_006151.1 + 55755 0.71 0.826024
Target:  5'- cUCCAUCCUgcGCGUgCGccACCUCGGCu- -3'
miRNA:   3'- -AGGUAGGAguUGCA-GU--UGGAGUCGcu -5'
29607 3' -52.1 NC_006151.1 + 128783 0.71 0.834645
Target:  5'- cUCCAcggCCUCG--GUC-GCCUCGGCGAg -3'
miRNA:   3'- -AGGUa--GGAGUugCAGuUGGAGUCGCU- -5'
29607 3' -52.1 NC_006151.1 + 50617 0.71 0.84307
Target:  5'- gCCG-CCgcggCAGCGUgCAcGCCUCGGCGAc -3'
miRNA:   3'- aGGUaGGa---GUUGCA-GU-UGGAGUCGCU- -5'
29607 3' -52.1 NC_006151.1 + 17593 0.71 0.867099
Target:  5'- cCCGUCCaUCAGCGU-GACCaCGGUGAu -3'
miRNA:   3'- aGGUAGG-AGUUGCAgUUGGaGUCGCU- -5'
29607 3' -52.1 NC_006151.1 + 78123 0.7 0.874669
Target:  5'- gCCAUCCUgCGGCGggccgCGggcGCCUCGGaCGAc -3'
miRNA:   3'- aGGUAGGA-GUUGCa----GU---UGGAGUC-GCU- -5'
29607 3' -52.1 NC_006151.1 + 26650 0.69 0.908974
Target:  5'- cCCGUCCUCcuCGUCcuccucguCCUCGGCc- -3'
miRNA:   3'- aGGUAGGAGuuGCAGuu------GGAGUCGcu -5'
29607 3' -52.1 NC_006151.1 + 87554 0.69 0.92097
Target:  5'- gUCCAggCCUCggUcUCGGCCcCGGCGGa -3'
miRNA:   3'- -AGGUa-GGAGuuGcAGUUGGaGUCGCU- -5'
29607 3' -52.1 NC_006151.1 + 101796 0.69 0.926589
Target:  5'- cCCGUCCUCGcCGUCGcccccguccccGCCguccccgucUCGGCGGc -3'
miRNA:   3'- aGGUAGGAGUuGCAGU-----------UGG---------AGUCGCU- -5'
29607 3' -52.1 NC_006151.1 + 2324 0.69 0.931954
Target:  5'- aCCAgcggggcggCCUCGGCGUCGGgCUcCAGCa- -3'
miRNA:   3'- aGGUa--------GGAGUUGCAGUUgGA-GUCGcu -5'
29607 3' -52.1 NC_006151.1 + 2164 0.68 0.937066
Target:  5'- cCCGUCCUCGcCGgggcCGGCCcCGGCGc -3'
miRNA:   3'- aGGUAGGAGUuGCa---GUUGGaGUCGCu -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.