miRNA display CGI


Results 1 - 19 of 19 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
11608 3' -56.8 NC_003085.1 + 19429 0.66 0.60285
Target:  5'- -cUugUGCUGGCCcuGGAaGCCgCgGACg -3'
miRNA:   3'- gcAugACGACCGG--CCUaCGGaGgUUG- -5'
11608 3' -56.8 NC_003085.1 + 8648 0.66 0.591821
Target:  5'- gGUACagGCcGGCCGGGacgcgcgugGCCUUgGGCg -3'
miRNA:   3'- gCAUGa-CGaCCGGCCUa--------CGGAGgUUG- -5'
11608 3' -56.8 NC_003085.1 + 29489 0.66 0.580827
Target:  5'- cCGUACU--UGGCCaGGAacUGC-UCCAGCa -3'
miRNA:   3'- -GCAUGAcgACCGG-CCU--ACGgAGGUUG- -5'
11608 3' -56.8 NC_003085.1 + 43624 0.66 0.548136
Target:  5'- aGUGCagaGCgGGCaCGGGaggccauccGCCUCCAGCa -3'
miRNA:   3'- gCAUGa--CGaCCG-GCCUa--------CGGAGGUUG- -5'
11608 3' -56.8 NC_003085.1 + 16253 0.67 0.526663
Target:  5'- uCGUGCUGC--GCCGcc-GCCUCCAGg -3'
miRNA:   3'- -GCAUGACGacCGGCcuaCGGAGGUUg -5'
11608 3' -56.8 NC_003085.1 + 35132 0.67 0.526663
Target:  5'- cCGUGCcauUGUgGGCCGGcUGCCg-CAACa -3'
miRNA:   3'- -GCAUG---ACGaCCGGCCuACGGagGUUG- -5'
11608 3' -56.8 NC_003085.1 + 12399 0.67 0.505514
Target:  5'- gGUGCUGCUgcucgacccGGCgGGGccgcUGCgCUCCGAg -3'
miRNA:   3'- gCAUGACGA---------CCGgCCU----ACG-GAGGUUg -5'
11608 3' -56.8 NC_003085.1 + 19377 0.67 0.505514
Target:  5'- aCGUGCUGUgcagccgcgugGGCCGGua-CC-CCAGCa -3'
miRNA:   3'- -GCAUGACGa----------CCGGCCuacGGaGGUUG- -5'
11608 3' -56.8 NC_003085.1 + 15045 0.68 0.473485
Target:  5'- aGUuuugGCUGGCCGGAauccccaUGCCgUCCGc- -3'
miRNA:   3'- gCAuga-CGACCGGCCU-------ACGG-AGGUug -5'
11608 3' -56.8 NC_003085.1 + 291 0.68 0.454366
Target:  5'- --gGCgGCaGGaCCGGGcgGCCUCCGACc -3'
miRNA:   3'- gcaUGaCGaCC-GGCCUa-CGGAGGUUG- -5'
11608 3' -56.8 NC_003085.1 + 49000 0.69 0.415539
Target:  5'- uCGUGCgcuccuUGUUGGCCGGGUaGuCCUUCAccGCg -3'
miRNA:   3'- -GCAUG------ACGACCGGCCUA-C-GGAGGU--UG- -5'
11608 3' -56.8 NC_003085.1 + 6368 0.69 0.409892
Target:  5'- gCGUGCUGCUggcGGCCGGucGuuucuuccucggccgUGUCUCCAcGCa -3'
miRNA:   3'- -GCAUGACGA---CCGGCC--U---------------ACGGAGGU-UG- -5'
11608 3' -56.8 NC_003085.1 + 11079 0.69 0.378813
Target:  5'- cCGUACUGg-GGCCaaauaGGAUGUCgCCGGCg -3'
miRNA:   3'- -GCAUGACgaCCGG-----CCUACGGaGGUUG- -5'
11608 3' -56.8 NC_003085.1 + 12568 0.7 0.34433
Target:  5'- gCGUGCUGUUGGCCcaGGUGCUgCUGAUg -3'
miRNA:   3'- -GCAUGACGACCGGc-CUACGGaGGUUG- -5'
11608 3' -56.8 NC_003085.1 + 5820 0.72 0.27523
Target:  5'- cCGgGCUGCUGGaggCGGAUGgCCUCCcguGCc -3'
miRNA:   3'- -GCaUGACGACCg--GCCUAC-GGAGGu--UG- -5'
11608 3' -56.8 NC_003085.1 + 11798 0.72 0.254796
Target:  5'- gCGUgucgGCUGCcccaucGCCGGGUGCC-CCGACg -3'
miRNA:   3'- -GCA----UGACGac----CGGCCUACGGaGGUUG- -5'
11608 3' -56.8 NC_003085.1 + 29020 0.74 0.200913
Target:  5'- aCGgcCcGCUGGg-GGAUGCCUCCAACg -3'
miRNA:   3'- -GCauGaCGACCggCCUACGGAGGUUG- -5'
11608 3' -56.8 NC_003085.1 + 13961 0.75 0.161611
Target:  5'- uCGUGCUuC-GGCCGGAUGCCUUCGuGCa -3'
miRNA:   3'- -GCAUGAcGaCCGGCCUACGGAGGU-UG- -5'
11608 3' -56.8 NC_003085.1 + 41143 1.1 0.00044
Target:  5'- cCGUACUGCUGGCCGGAUGCCUCCAACg -3'
miRNA:   3'- -GCAUGACGACCGGCCUACGGAGGUUG- -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.