miRNA display CGI


Results 1 - 20 of 69 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
11429 3' -61.2 NC_003085.1 + 48909 0.66 0.435117
Target:  5'- aGCCGCGcCgCCUcGCGccgUUCGCCaaucuccgcgaGGGCa -3'
miRNA:   3'- -CGGCGCaG-GGGuUGCa--GAGCGG-----------CCCG- -5'
11429 3' -61.2 NC_003085.1 + 47333 0.68 0.333213
Target:  5'- gGCCGcCGUCCUCgGACGUguaCUUG-UGGGCg -3'
miRNA:   3'- -CGGC-GCAGGGG-UUGCA---GAGCgGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 45618 0.66 0.400034
Target:  5'- cGCCGUgGUCCUgGAUGggcagugcgggaaugCUCGCCGuGCa -3'
miRNA:   3'- -CGGCG-CAGGGgUUGCa--------------GAGCGGCcCG- -5'
11429 3' -61.2 NC_003085.1 + 44952 0.67 0.356978
Target:  5'- cGCCGUG--CCCAGCGUCUCgacucguuGCUgucuugaguuGGGCg -3'
miRNA:   3'- -CGGCGCagGGGUUGCAGAG--------CGG----------CCCG- -5'
11429 3' -61.2 NC_003085.1 + 44368 0.67 0.356978
Target:  5'- cCCGCGUCa---ACGUCacugUCGCuCGGGCu -3'
miRNA:   3'- cGGCGCAGggguUGCAG----AGCG-GCCCG- -5'
11429 3' -61.2 NC_003085.1 + 43986 0.66 0.389609
Target:  5'- cGCCGCGUuguccgcCUCCAAC-UCcCGCacuCGGGCc -3'
miRNA:   3'- -CGGCGCA-------GGGGUUGcAGaGCG---GCCCG- -5'
11429 3' -61.2 NC_003085.1 + 43863 0.7 0.231994
Target:  5'- aCCGCGUCaCUCAGCaucGUC-CGCaccaGGGCg -3'
miRNA:   3'- cGGCGCAG-GGGUUG---CAGaGCGg---CCCG- -5'
11429 3' -61.2 NC_003085.1 + 42702 0.68 0.333213
Target:  5'- cUCGcCGUCCgCCAcgGCGcggCagGCCGGGCa -3'
miRNA:   3'- cGGC-GCAGG-GGU--UGCa--GagCGGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 42219 0.66 0.416901
Target:  5'- aGCC-UGUCCCCGGgcUGUC-CGUagGGGCa -3'
miRNA:   3'- -CGGcGCAGGGGUU--GCAGaGCGg-CCCG- -5'
11429 3' -61.2 NC_003085.1 + 41997 0.67 0.348925
Target:  5'- cGCCGUGUuccugCCCCGGCGg--CGUCGG-Ca -3'
miRNA:   3'- -CGGCGCA-----GGGGUUGCagaGCGGCCcG- -5'
11429 3' -61.2 NC_003085.1 + 41827 0.68 0.296231
Target:  5'- cGCCGCccaagcgCCCCAugaGUCcCGCCcGGCg -3'
miRNA:   3'- -CGGCGca-----GGGGUug-CAGaGCGGcCCG- -5'
11429 3' -61.2 NC_003085.1 + 41368 0.7 0.24383
Target:  5'- gGCCGCGUCaCCC-ACGUCaugacggUGgUGGGUg -3'
miRNA:   3'- -CGGCGCAG-GGGuUGCAGa------GCgGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 41032 0.69 0.269003
Target:  5'- cGCUgGCGUCCUCcugGGCGgCUUGgCGGGCu -3'
miRNA:   3'- -CGG-CGCAGGGG---UUGCaGAGCgGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 40899 0.7 0.249934
Target:  5'- cGCCGCGaCCUCAagaccugcgugACGagCUCGCCGcGCg -3'
miRNA:   3'- -CGGCGCaGGGGU-----------UGCa-GAGCGGCcCG- -5'
11429 3' -61.2 NC_003085.1 + 40663 0.67 0.341004
Target:  5'- cGCCGCGcaaCCUcGCGgagC-CGCCGGcGCa -3'
miRNA:   3'- -CGGCGCag-GGGuUGCa--GaGCGGCC-CG- -5'
11429 3' -61.2 NC_003085.1 + 40572 0.66 0.40797
Target:  5'- gGCCGCGguggaCCCCAAgugcagcauUG-C-CGaCCGGGCg -3'
miRNA:   3'- -CGGCGCa----GGGGUU---------GCaGaGC-GGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 38679 0.68 0.308436
Target:  5'- cGCUGCGcggaagagguggcaUgcCCCCAGCGUCUUcCCGGcGCc -3'
miRNA:   3'- -CGGCGC--------------A--GGGGUUGCAGAGcGGCC-CG- -5'
11429 3' -61.2 NC_003085.1 + 38479 1.13 0.000152
Target:  5'- uGCCGCGUCCCCAACGUCUCGCCGGGCa -3'
miRNA:   3'- -CGGCGCAGGGGUUGCAGAGCGGCCCG- -5'
11429 3' -61.2 NC_003085.1 + 31935 0.66 0.407083
Target:  5'- cGCUGCGagCCCCAucccgaugaggaaGucCGUCaUUGCCGGGa -3'
miRNA:   3'- -CGGCGCa-GGGGU-------------U--GCAG-AGCGGCCCg -5'
11429 3' -61.2 NC_003085.1 + 31142 0.66 0.444396
Target:  5'- cGuuGCGgcugCCCUucgGACGgccagCGCCGGGg -3'
miRNA:   3'- -CggCGCa---GGGG---UUGCaga--GCGGCCCg -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.