miRNA display CGI


Results 1 - 20 of 35 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
19253 3' -56.5 NC_004684.1 + 60796 1.11 0.000812
Target:  5'- aGGAACUCGCCUCGGUGCGUGGCGUACc -3'
miRNA:   3'- -CCUUGAGCGGAGCCACGCACCGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 41643 0.78 0.171262
Target:  5'- aGGAGaUCGCCUcCGGUGC--GGCGUACg -3'
miRNA:   3'- -CCUUgAGCGGA-GCCACGcaCCGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 47125 0.76 0.205714
Target:  5'- aGAGCgugCGCCUCGGUgGCGUaGGCGg-- -3'
miRNA:   3'- cCUUGa--GCGGAGCCA-CGCA-CCGCaug -5'
19253 3' -56.5 NC_004684.1 + 20218 0.74 0.299819
Target:  5'- aGAGCcuuUCGCCUgGGUGCGccUGGCGcGCc -3'
miRNA:   3'- cCUUG---AGCGGAgCCACGC--ACCGCaUG- -5'
19253 3' -56.5 NC_004684.1 + 6832 0.72 0.370716
Target:  5'- aGGAGCUgGCCUaCGGcGCGaagGGCG-ACg -3'
miRNA:   3'- -CCUUGAgCGGA-GCCaCGCa--CCGCaUG- -5'
19253 3' -56.5 NC_004684.1 + 26430 0.72 0.387949
Target:  5'- cGGggUUCGCCgcCGGUgGCccGGUGUACg -3'
miRNA:   3'- -CCuuGAGCGGa-GCCA-CGcaCCGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 7636 0.72 0.396761
Target:  5'- -cAGCUCGCCguggCGG-GCGUGGUG-ACc -3'
miRNA:   3'- ccUUGAGCGGa---GCCaCGCACCGCaUG- -5'
19253 3' -56.5 NC_004684.1 + 5772 0.72 0.396761
Target:  5'- -cGACUgGCCcaaGUGCGUGGUGUGCg -3'
miRNA:   3'- ccUUGAgCGGagcCACGCACCGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 53808 0.7 0.471646
Target:  5'- cGGGuugCGCCUCcaUGCG-GGCGUGCg -3'
miRNA:   3'- -CCUugaGCGGAGccACGCaCCGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 43100 0.69 0.521908
Target:  5'- cGGAcCUCGCCuuccggcagcUCGGUGauuucgGUGGCGaGCu -3'
miRNA:   3'- -CCUuGAGCGG----------AGCCACg-----CACCGCaUG- -5'
19253 3' -56.5 NC_004684.1 + 14750 0.69 0.542598
Target:  5'- cGGGAC-CGUCgCGGUuccugaucagcgGCGUGGaCGUACu -3'
miRNA:   3'- -CCUUGaGCGGaGCCA------------CGCACC-GCAUG- -5'
19253 3' -56.5 NC_004684.1 + 33196 0.69 0.560394
Target:  5'- uGAGugaUCGUCUCGGuUGCGUugagcgugagcucgGGCGUGCc -3'
miRNA:   3'- cCUUg--AGCGGAGCC-ACGCA--------------CCGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 46776 0.68 0.584714
Target:  5'- uGGcGCUCGCCggugcccaGGUagacgcucgGCGUGaGCGUGCc -3'
miRNA:   3'- -CCuUGAGCGGag------CCA---------CGCAC-CGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 46575 0.68 0.595356
Target:  5'- aGGAACUCaGCCcagucgucgCGGcugGCGUuGCGUGCc -3'
miRNA:   3'- -CCUUGAG-CGGa--------GCCa--CGCAcCGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 29334 0.68 0.595356
Target:  5'- uGAGCUUcuugGCCUCGGggGUGgucgGcGCGUACa -3'
miRNA:   3'- cCUUGAG----CGGAGCCa-CGCa---C-CGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 63509 0.68 0.604959
Target:  5'- aGGAugUCugaccagGCCUUGGcacUGCGcagcGGCGUGCc -3'
miRNA:   3'- -CCUugAG-------CGGAGCC---ACGCa---CCGCAUG- -5'
19253 3' -56.5 NC_004684.1 + 32422 0.68 0.616719
Target:  5'- -cAGCggCaCCUCGG-GCGUGGCGaUGCa -3'
miRNA:   3'- ccUUGa-GcGGAGCCaCGCACCGC-AUG- -5'
19253 3' -56.5 NC_004684.1 + 52647 0.67 0.634921
Target:  5'- aGGAAC-CGCgacggucccgcaucCUCGGaccauUGCGUGGCcccGUACa -3'
miRNA:   3'- -CCUUGaGCG--------------GAGCC-----ACGCACCG---CAUG- -5'
19253 3' -56.5 NC_004684.1 + 25546 0.67 0.648837
Target:  5'- cGGuGCUCaagaGCCUCGGcGCGgUGGaagGUGCg -3'
miRNA:   3'- -CCuUGAG----CGGAGCCaCGC-ACCg--CAUG- -5'
19253 3' -56.5 NC_004684.1 + 24500 0.67 0.648837
Target:  5'- aGGuGGCg-GUCUCGGUGCcagaggccgGGCGUGCg -3'
miRNA:   3'- -CC-UUGagCGGAGCCACGca-------CCGCAUG- -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.