miRNA display CGI


Results 1 - 20 of 40 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
23818 3' -61.8 NC_005261.1 + 31568 0.66 0.68101
Target:  5'- gGGUCCUGGACGGGcgcgccGGACgugagcgcgCUCGGCg -3'
miRNA:   3'- -CCGGGACCUGCUCc-----CCUGg--------GAGCUGa -5'
23818 3' -61.8 NC_005261.1 + 134949 0.68 0.50671
Target:  5'- aGCCgaUGGGCGAGGGcGCCggCGACg -3'
miRNA:   3'- cCGGg-ACCUGCUCCCcUGGgaGCUGa -5'
23818 3' -61.8 NC_005261.1 + 48324 0.68 0.525462
Target:  5'- gGGCCC-GGGCucGGGGGCgCgcgCGGCg -3'
miRNA:   3'- -CCGGGaCCUGcuCCCCUGgGa--GCUGa -5'
23818 3' -61.8 NC_005261.1 + 135094 0.68 0.534936
Target:  5'- cGGCCCggcGGcggagcGCGAGGcGGACCCcgCGuCUc -3'
miRNA:   3'- -CCGGGa--CC------UGCUCC-CCUGGGa-GCuGA- -5'
23818 3' -61.8 NC_005261.1 + 124773 0.68 0.544469
Target:  5'- aGGCUgaGGA-GcGGGGGCCCUucCGACa -3'
miRNA:   3'- -CCGGgaCCUgCuCCCCUGGGA--GCUGa -5'
23818 3' -61.8 NC_005261.1 + 109861 0.68 0.554057
Target:  5'- cGGCuCCUGGGgGcAGcGGGGCCCgcgGGCg -3'
miRNA:   3'- -CCG-GGACCUgC-UC-CCCUGGGag-CUGa -5'
23818 3' -61.8 NC_005261.1 + 30799 0.67 0.563695
Target:  5'- aGGUgCUGGGgccggaggagcUGGGGGGGCCCgggGACg -3'
miRNA:   3'- -CCGgGACCU-----------GCUCCCCUGGGag-CUGa -5'
23818 3' -61.8 NC_005261.1 + 118009 0.67 0.570467
Target:  5'- cGGCgCUGGACGcugucggacgcacgcGGGGCCCggccgCGACg -3'
miRNA:   3'- -CCGgGACCUGCuc-------------CCCUGGGa----GCUGa -5'
23818 3' -61.8 NC_005261.1 + 97744 0.67 0.592848
Target:  5'- uGGCag-GGGCGGGGcGGGCUCggCGGCg -3'
miRNA:   3'- -CCGggaCCUGCUCC-CCUGGGa-GCUGa -5'
23818 3' -61.8 NC_005261.1 + 90077 0.68 0.50671
Target:  5'- gGGCgCCgagGGcaGCGAcGGGGGCCCguucgcCGGCUg -3'
miRNA:   3'- -CCG-GGa--CC--UGCU-CCCCUGGGa-----GCUGA- -5'
23818 3' -61.8 NC_005261.1 + 25332 0.68 0.50671
Target:  5'- aGCCCcGGcuUGGGGGGGCCCUCc--- -3'
miRNA:   3'- cCGGGaCCu-GCUCCCCUGGGAGcuga -5'
23818 3' -61.8 NC_005261.1 + 29125 0.69 0.497442
Target:  5'- aGCCCUGGcgcCGGGGGGcGCCC-CGcCg -3'
miRNA:   3'- cCGGGACCu--GCUCCCC-UGGGaGCuGa -5'
23818 3' -61.8 NC_005261.1 + 21213 0.73 0.265743
Target:  5'- uGGCCCcGGccGCGAcGGcGGGCCCgUCGGCUg -3'
miRNA:   3'- -CCGGGaCC--UGCU-CC-CCUGGG-AGCUGA- -5'
23818 3' -61.8 NC_005261.1 + 28522 0.72 0.339214
Target:  5'- cGGCCCggagggGGGCccgGAGGaGGACCCggcccugcUCGACg -3'
miRNA:   3'- -CCGGGa-----CCUG---CUCC-CCUGGG--------AGCUGa -5'
23818 3' -61.8 NC_005261.1 + 97462 0.71 0.368581
Target:  5'- cGGCgCCgGGAucgccaaaaccguCGGGGGGGCCCUUGGg- -3'
miRNA:   3'- -CCG-GGaCCU-------------GCUCCCCUGGGAGCUga -5'
23818 3' -61.8 NC_005261.1 + 87768 0.71 0.385101
Target:  5'- gGGCCCUGGcGCGAGGGucACCguCUUGGCc -3'
miRNA:   3'- -CCGGGACC-UGCUCCCc-UGG--GAGCUGa -5'
23818 3' -61.8 NC_005261.1 + 18669 0.7 0.409534
Target:  5'- gGGCCCcagcGGGCGAaGGGGCCC-CaGGCUg -3'
miRNA:   3'- -CCGGGa---CCUGCUcCCCUGGGaG-CUGA- -5'
23818 3' -61.8 NC_005261.1 + 33708 0.7 0.42635
Target:  5'- gGGCCCgcugcacgagGGGCGGuGGGGGCCUgccccucgcgCGGCg -3'
miRNA:   3'- -CCGGGa---------CCUGCU-CCCCUGGGa---------GCUGa -5'
23818 3' -61.8 NC_005261.1 + 22662 0.7 0.438363
Target:  5'- cGGCgCCUGGGCGGcgcccgagugccgccGGGGgacggGCCCggCGACg -3'
miRNA:   3'- -CCG-GGACCUGCU---------------CCCC-----UGGGa-GCUGa -5'
23818 3' -61.8 NC_005261.1 + 137036 0.69 0.470113
Target:  5'- cGGCgUcGGugGAGGgcGGACCgUCGGCa -3'
miRNA:   3'- -CCGgGaCCugCUCC--CCUGGgAGCUGa -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.