miRNA display CGI


Results 21 - 39 of 39 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
14070 3' -45.2 NC_003521.1 + 197607 0.68 0.999991
Target:  5'- cGCUGCCcgguaaCGCGUgAcAGUAAUAGUAGg -3'
miRNA:   3'- -UGAUGGug----GCGCAgU-UUAUUAUCAUU- -5'
14070 3' -45.2 NC_003521.1 + 129859 0.67 0.999994
Target:  5'- cCUGCUACUGCGaCGAGUG--GGUGAc -3'
miRNA:   3'- uGAUGGUGGCGCaGUUUAUuaUCAUU- -5'
14070 3' -45.2 NC_003521.1 + 37101 0.67 0.999994
Target:  5'- uACUGCCACCGCGugUCGGAc-------- -3'
miRNA:   3'- -UGAUGGUGGCGC--AGUUUauuaucauu -5'
14070 3' -45.2 NC_003521.1 + 74619 0.67 0.999994
Target:  5'- --cGCCGCCGCGcCAAcagcggGGUGGUGc -3'
miRNA:   3'- ugaUGGUGGCGCaGUUua----UUAUCAUu -5'
14070 3' -45.2 NC_003521.1 + 52601 0.67 0.999997
Target:  5'- uGCUGCgACCGCuUCGAcgAGUGGc-- -3'
miRNA:   3'- -UGAUGgUGGCGcAGUUuaUUAUCauu -5'
14070 3' -45.2 NC_003521.1 + 90211 0.67 0.999997
Target:  5'- aGCaGCCGCCGCaaCAGcccacggggacGUGAUAGUGAg -3'
miRNA:   3'- -UGaUGGUGGCGcaGUU-----------UAUUAUCAUU- -5'
14070 3' -45.2 NC_003521.1 + 76914 0.67 0.999999
Target:  5'- cGCUGCCGCCGCaccCGAGUAAc----- -3'
miRNA:   3'- -UGAUGGUGGCGca-GUUUAUUaucauu -5'
14070 3' -45.2 NC_003521.1 + 105358 0.66 1
Target:  5'- cACUGCguCCGCGUCGAcgGggGGc-- -3'
miRNA:   3'- -UGAUGguGGCGCAGUUuaUuaUCauu -5'
14070 3' -45.2 NC_003521.1 + 120295 0.66 1
Target:  5'- --aGCCACCGCGcUCGGGg---GGUGu -3'
miRNA:   3'- ugaUGGUGGCGC-AGUUUauuaUCAUu -5'
14070 3' -45.2 NC_003521.1 + 171627 0.66 1
Target:  5'- -gUGCCGCCGaCGUCGGGUAu--GUc- -3'
miRNA:   3'- ugAUGGUGGC-GCAGUUUAUuauCAuu -5'
14070 3' -45.2 NC_003521.1 + 215043 0.67 0.999995
Target:  5'- gGCUGCaGCCGCGUgGAGccccugggcugccUGGUGGUGc -3'
miRNA:   3'- -UGAUGgUGGCGCAgUUU-------------AUUAUCAUu -5'
14070 3' -45.2 NC_003521.1 + 166046 0.68 0.999991
Target:  5'- cGCUGCCGCCGuCGUCAu---------- -3'
miRNA:   3'- -UGAUGGUGGC-GCAGUuuauuaucauu -5'
14070 3' -45.2 NC_003521.1 + 45155 0.68 0.999987
Target:  5'- uACUgggACCGCaCGCG-UAAGUGGUGGUGc -3'
miRNA:   3'- -UGA---UGGUG-GCGCaGUUUAUUAUCAUu -5'
14070 3' -45.2 NC_003521.1 + 61863 0.68 0.999976
Target:  5'- --cACCGCCGCGUCuu---GUGGUc- -3'
miRNA:   3'- ugaUGGUGGCGCAGuuuauUAUCAuu -5'
14070 3' -45.2 NC_003521.1 + 234784 0.68 0.999976
Target:  5'- cGCUACCGCC-CGagAGcgAGUGGUAc -3'
miRNA:   3'- -UGAUGGUGGcGCagUUuaUUAUCAUu -5'
14070 3' -45.2 NC_003521.1 + 140802 0.72 0.998905
Target:  5'- aGCcGCUGCUGCGUCGucUGGUGGUGGa -3'
miRNA:   3'- -UGaUGGUGGCGCAGUuuAUUAUCAUU- -5'
14070 3' -45.2 NC_003521.1 + 128882 0.76 0.976696
Target:  5'- cCUGCCGCCGCGcCAGGUAGUcgagggcggcgucGGUAc -3'
miRNA:   3'- uGAUGGUGGCGCaGUUUAUUA-------------UCAUu -5'
14070 3' -45.2 NC_003521.1 + 142053 1.07 0.057943
Target:  5'- gACUACCACCGCGUCAAAUAAUAGUAAu -3'
miRNA:   3'- -UGAUGGUGGCGCAGUUUAUUAUCAUU- -5'
14070 3' -45.2 NC_003521.1 + 113607 0.66 1
Target:  5'- --gACCACCGCGccagCGAcgAcgAGUGGa -3'
miRNA:   3'- ugaUGGUGGCGCa---GUUuaUuaUCAUU- -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.