miRNA display CGI


Results 1 - 20 of 73 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
26263 3' -59.5 NC_005345.2 + 14638 0.74 0.167119
Target:  5'- cGCGGCCCGcCUCGAcc-GCGUCCuCGg -3'
miRNA:   3'- cCGCCGGGC-GAGCUacaUGCAGGcGC- -5'
26263 3' -59.5 NC_005345.2 + 9961 0.68 0.369683
Target:  5'- cGCGGCCCggGUUCGGgcugGgGUCCGCc -3'
miRNA:   3'- cCGCCGGG--CGAGCUaca-UgCAGGCGc -5'
26263 3' -59.5 NC_005345.2 + 25165 0.68 0.378165
Target:  5'- cGGCGGCCggaGCaCGuUGauCGUCCGCGc -3'
miRNA:   3'- -CCGCCGGg--CGaGCuACauGCAGGCGC- -5'
26263 3' -59.5 NC_005345.2 + 22288 0.66 0.518625
Target:  5'- aGGCGGCCgGggCGAcGUGgGUCgagguguCGCGg -3'
miRNA:   3'- -CCGCCGGgCgaGCUaCAUgCAG-------GCGC- -5'
26263 3' -59.5 NC_005345.2 + 9044 0.71 0.252121
Target:  5'- cGGCGaccGCCgGCUCG-UGcAgGUCCGCGa -3'
miRNA:   3'- -CCGC---CGGgCGAGCuACaUgCAGGCGC- -5'
26263 3' -59.5 NC_005345.2 + 43979 0.71 0.258471
Target:  5'- cGGCGGCUCGCcCGAcucGU-CGgccgCCGCGg -3'
miRNA:   3'- -CCGCCGGGCGaGCUa--CAuGCa---GGCGC- -5'
26263 3' -59.5 NC_005345.2 + 30371 0.7 0.285184
Target:  5'- cGGCaGCCCGCggcgggcgcaggUCGAggcGUaccucgacgacGCGUCCGCGc -3'
miRNA:   3'- -CCGcCGGGCG------------AGCUa--CA-----------UGCAGGCGC- -5'
26263 3' -59.5 NC_005345.2 + 10803 0.7 0.306616
Target:  5'- aGGCGGaCCgGCUCGAUugGUGC--CUGCGg -3'
miRNA:   3'- -CCGCC-GGgCGAGCUA--CAUGcaGGCGC- -5'
26263 3' -59.5 NC_005345.2 + 17606 0.69 0.32926
Target:  5'- cGCGGCCCaagggGCUgUGAUGcACG-CCGCGu -3'
miRNA:   3'- cCGCCGGG-----CGA-GCUACaUGCaGGCGC- -5'
26263 3' -59.5 NC_005345.2 + 40098 0.69 0.345028
Target:  5'- uGGCGccgcGCCUGCUCGGUGUcacACG-CCGa- -3'
miRNA:   3'- -CCGC----CGGGCGAGCUACA---UGCaGGCgc -5'
26263 3' -59.5 NC_005345.2 + 9364 0.69 0.345028
Target:  5'- gGGCGGCCgGgCUCGAccacUACGggcagCCGCu -3'
miRNA:   3'- -CCGCCGGgC-GAGCUac--AUGCa----GGCGc -5'
26263 3' -59.5 NC_005345.2 + 32775 0.69 0.311791
Target:  5'- uGGCGGCgcagagcggcgacgCCGCggCGAUGcucgGCGcguUCCGCGa -3'
miRNA:   3'- -CCGCCG--------------GGCGa-GCUACa---UGC---AGGCGC- -5'
26263 3' -59.5 NC_005345.2 + 30931 0.73 0.180815
Target:  5'- cGGCGG-CCGCUcaCGGUGcACGgCCGCGa -3'
miRNA:   3'- -CCGCCgGGCGA--GCUACaUGCaGGCGC- -5'
26263 3' -59.5 NC_005345.2 + 26878 0.69 0.345028
Target:  5'- cGGCGGUgCGgUCGAUGggugagGCG-CUGCa -3'
miRNA:   3'- -CCGCCGgGCgAGCUACa-----UGCaGGCGc -5'
26263 3' -59.5 NC_005345.2 + 35827 0.73 0.185597
Target:  5'- -uCGGCCCGCUCGGUGgg-GUUCGgGg -3'
miRNA:   3'- ccGCCGGGCGAGCUACaugCAGGCgC- -5'
26263 3' -59.5 NC_005345.2 + 10143 0.7 0.306616
Target:  5'- aGGCGGCggCCGCUCuGcgGaGCGcCCGCc -3'
miRNA:   3'- -CCGCCG--GGCGAG-CuaCaUGCaGGCGc -5'
26263 3' -59.5 NC_005345.2 + 39560 0.69 0.345028
Target:  5'- cGCGGCCgGUcccggcCGGUcGUGCGUUCGCa -3'
miRNA:   3'- cCGCCGGgCGa-----GCUA-CAUGCAGGCGc -5'
26263 3' -59.5 NC_005345.2 + 6468 0.68 0.378165
Target:  5'- aGCGGgCCGC-CGAgcUGUACGgCgGCGa -3'
miRNA:   3'- cCGCCgGGCGaGCU--ACAUGCaGgCGC- -5'
26263 3' -59.5 NC_005345.2 + 14604 0.73 0.195496
Target:  5'- aGCGGCuCCGgaUCGAcggGUACGcCCGCGa -3'
miRNA:   3'- cCGCCG-GGCg-AGCUa--CAUGCaGGCGC- -5'
26263 3' -59.5 NC_005345.2 + 10733 0.71 0.258471
Target:  5'- cGGaUGGCCgCGCUCGAUGU-CGU-CGCc -3'
miRNA:   3'- -CC-GCCGG-GCGAGCUACAuGCAgGCGc -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.