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
14713 3' -53 NC_003529.1 + 82751 0.74 0.631116
Target:  5'- aGCGCaagccgaucgaGCCGGCCAACgcuuucgauaACGCGGACAa -3'
miRNA:   3'- -CGUG-----------CGGCCGGUUGaug-------UGCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 131777 0.66 0.972843
Target:  5'- aGCACGUC-GUCGGCggGCACGCGuuCu -3'
miRNA:   3'- -CGUGCGGcCGGUUGa-UGUGCGUuuGu -5'
14713 3' -53 NC_003529.1 + 52181 0.66 0.966852
Target:  5'- aCGCGCCgaGGCUuGCUuCugGCGAAUg -3'
miRNA:   3'- cGUGCGG--CCGGuUGAuGugCGUUUGu -5'
14713 3' -53 NC_003529.1 + 146103 0.68 0.939177
Target:  5'- cGCACGUauucgacaaaaaagaGGCCAACgugUACAuCGUGAGCAu -3'
miRNA:   3'- -CGUGCGg--------------CCGGUUG---AUGU-GCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 59382 0.68 0.938204
Target:  5'- gGCAauuuaGuCCGGCCGACUGCAccugugcCGCGggUu -3'
miRNA:   3'- -CGUg----C-GGCCGGUUGAUGU-------GCGUuuGu -5'
14713 3' -53 NC_003529.1 + 43127 0.68 0.9337
Target:  5'- aCACGCCGccCCAACaugGCGCGUuAACAu -3'
miRNA:   3'- cGUGCGGCc-GGUUGa--UGUGCGuUUGU- -5'
14713 3' -53 NC_003529.1 + 143418 0.69 0.905003
Target:  5'- gGCAUGUCGGUguACggu-CGCGAGCAg -3'
miRNA:   3'- -CGUGCGGCCGguUGauguGCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 21664 0.69 0.894517
Target:  5'- gGCACGCCGGgcacuuucgcccaccCCAucgucaacaucaACgcaaGCACGCAAAUAu -3'
miRNA:   3'- -CGUGCGGCC---------------GGU------------UGa---UGUGCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 150202 0.7 0.877644
Target:  5'- uCACGCCGGCCAGgUuaaACcCGGACGa -3'
miRNA:   3'- cGUGCGGCCGGUUgAug-UGcGUUUGU- -5'
14713 3' -53 NC_003529.1 + 88713 0.7 0.862574
Target:  5'- -uGCGC--GCCGACUGCuCGCGGACAg -3'
miRNA:   3'- cgUGCGgcCGGUUGAUGuGCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 120571 0.7 0.853912
Target:  5'- gGCGCGCCGccGCCAACUuuGCuuuuauauagagaGCAGACu -3'
miRNA:   3'- -CGUGCGGC--CGGUUGAugUG-------------CGUUUGu -5'
14713 3' -53 NC_003529.1 + 56256 0.74 0.654118
Target:  5'- --uUGCUGGCCGACUGCAuCGCGAuCGu -3'
miRNA:   3'- cguGCGGCCGGUUGAUGU-GCGUUuGU- -5'
14713 3' -53 NC_003529.1 + 25056 0.72 0.746226
Target:  5'- -gACGUCGGCCAcUUGCGCGCccAGCGg -3'
miRNA:   3'- cgUGCGGCCGGUuGAUGUGCGu-UUGU- -5'
14713 3' -53 NC_003529.1 + 92497 0.72 0.746226
Target:  5'- cCACGCCGucGCCaAGgUACGCGUAGGCGu -3'
miRNA:   3'- cGUGCGGC--CGG-UUgAUGUGCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 53705 0.71 0.812383
Target:  5'- uGCACGCCGGUCcGCUacgaACugGaUAAACu -3'
miRNA:   3'- -CGUGCGGCCGGuUGA----UGugC-GUUUGu -5'
14713 3' -53 NC_003529.1 + 32158 0.71 0.821224
Target:  5'- gGCGaucCGCCa-CCGugUACACGCAAGCGc -3'
miRNA:   3'- -CGU---GCGGccGGUugAUGUGCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 142083 0.7 0.838359
Target:  5'- aCACGaCauuaaGGCCGAUcaaugUACGCGCAAGCGu -3'
miRNA:   3'- cGUGC-Gg----CCGGUUG-----AUGUGCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 120318 0.7 0.846636
Target:  5'- aGCACGCUcGCCAcGCUGCAUuuugucucgGUAAACAa -3'
miRNA:   3'- -CGUGCGGcCGGU-UGAUGUG---------CGUUUGU- -5'
14713 3' -53 NC_003529.1 + 145871 1.11 0.004022
Target:  5'- aGCACGCCGGCCAACUACACGCAAACAu -3'
miRNA:   3'- -CGUGCGGCCGGUUGAUGUGCGUUUGU- -5'
14713 3' -53 NC_003529.1 + 59721 0.66 0.97801
Target:  5'- gGCACGaCGGaucaCCAA--AUACGCAAACAu -3'
miRNA:   3'- -CGUGCgGCC----GGUUgaUGUGCGUUUGU- -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.