miRNA display CGI


Results 1 - 20 of 30 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
18628 3' -55.7 NC_004682.1 + 35135 0.78 0.127665
Target:  5'- cGCaCUGCGCGA--UGGCGUGGUCGAUc -3'
miRNA:   3'- aUG-GAUGUGCUguACCGCGCCAGCUG- -5'
18628 3' -55.7 NC_004682.1 + 39334 0.68 0.54449
Target:  5'- cGCUUGC-CGu--UGGCGCGG-CGGCa -3'
miRNA:   3'- aUGGAUGuGCuguACCGCGCCaGCUG- -5'
18628 3' -55.7 NC_004682.1 + 50515 0.67 0.56624
Target:  5'- gUGCCUACAgGGCAgggGGUGCcaGGUgGGg -3'
miRNA:   3'- -AUGGAUGUgCUGUa--CCGCG--CCAgCUg -5'
18628 3' -55.7 NC_004682.1 + 42530 0.67 0.588207
Target:  5'- gAUgUACcCGACGUGGCuCGG-CGGCg -3'
miRNA:   3'- aUGgAUGuGCUGUACCGcGCCaGCUG- -5'
18628 3' -55.7 NC_004682.1 + 24342 0.67 0.599251
Target:  5'- gGCagaGCugGGCu--GCGUGGUCGACg -3'
miRNA:   3'- aUGga-UGugCUGuacCGCGCCAGCUG- -5'
18628 3' -55.7 NC_004682.1 + 29087 0.67 0.599251
Target:  5'- -uCCUGCcgggaGAUGUcGGCGgGGUCGGCu -3'
miRNA:   3'- auGGAUGug---CUGUA-CCGCgCCAGCUG- -5'
18628 3' -55.7 NC_004682.1 + 21716 0.66 0.654707
Target:  5'- cGCCUcuGgGCGGCAugaUGGaCGCGGUUG-Cg -3'
miRNA:   3'- aUGGA--UgUGCUGU---ACC-GCGCCAGCuG- -5'
18628 3' -55.7 NC_004682.1 + 49160 0.66 0.665776
Target:  5'- cACCUugACGugGuUGGCuaccuuGCGGUCa-- -3'
miRNA:   3'- aUGGAugUGCugU-ACCG------CGCCAGcug -5'
18628 3' -55.7 NC_004682.1 + 21774 0.66 0.676813
Target:  5'- gGCCUuccaggaguACcCGACGcuccGUGCGGUCGGCa -3'
miRNA:   3'- aUGGA---------UGuGCUGUac--CGCGCCAGCUG- -5'
18628 3' -55.7 NC_004682.1 + 39295 0.68 0.54449
Target:  5'- aUGCCUGuuu--CGUGGuCGUGGUCGACg -3'
miRNA:   3'- -AUGGAUgugcuGUACC-GCGCCAGCUG- -5'
18628 3' -55.7 NC_004682.1 + 1389 0.69 0.479073
Target:  5'- cGCCUcgACAgCGACucgcugguccucUGGCGCGGUCG-Cg -3'
miRNA:   3'- aUGGA--UGU-GCUGu-----------ACCGCGCCAGCuG- -5'
18628 3' -55.7 NC_004682.1 + 35521 0.69 0.470906
Target:  5'- -uCCUGCugGACcgGGCcGUaGUCGAUg -3'
miRNA:   3'- auGGAUGugCUGuaCCG-CGcCAGCUG- -5'
18628 3' -55.7 NC_004682.1 + 16659 0.72 0.332896
Target:  5'- gGCgCUGCGCGGCAUGcGCuCGGgCGGCa -3'
miRNA:   3'- aUG-GAUGUGCUGUAC-CGcGCCaGCUG- -5'
18628 3' -55.7 NC_004682.1 + 30803 0.71 0.366662
Target:  5'- aGCCUGCAgcggguugauguUGGCGUGGCaGCGGUCc-- -3'
miRNA:   3'- aUGGAUGU------------GCUGUACCG-CGCCAGcug -5'
18628 3' -55.7 NC_004682.1 + 3218 0.71 0.375464
Target:  5'- cACCUACGuCGGC--GGCGCGGcacagggCGACa -3'
miRNA:   3'- aUGGAUGU-GCUGuaCCGCGCCa------GCUG- -5'
18628 3' -55.7 NC_004682.1 + 6133 0.7 0.431183
Target:  5'- gGCCUACgccaaggcguACGACGgcgGGCcgcuGCGaGUCGACg -3'
miRNA:   3'- aUGGAUG----------UGCUGUa--CCG----CGC-CAGCUG- -5'
18628 3' -55.7 NC_004682.1 + 3478 0.7 0.440932
Target:  5'- aGCCUGCugGGCcgGGaGCGGaCGGu -3'
miRNA:   3'- aUGGAUGugCUGuaCCgCGCCaGCUg -5'
18628 3' -55.7 NC_004682.1 + 23075 0.69 0.458789
Target:  5'- cGCCUACGCGAUccugacgAUccccgcaaccaucGGUGCGGUCGcCg -3'
miRNA:   3'- aUGGAUGUGCUG-------UA-------------CCGCGCCAGCuG- -5'
18628 3' -55.7 NC_004682.1 + 2944 0.69 0.460797
Target:  5'- aACCUGauCGACuucuggGGCGCGGgCGGCg -3'
miRNA:   3'- aUGGAUguGCUGua----CCGCGCCaGCUG- -5'
18628 3' -55.7 NC_004682.1 + 6355 0.69 0.470906
Target:  5'- cGCCgACACGGCGcGG-GCGGugcUCGACa -3'
miRNA:   3'- aUGGaUGUGCUGUaCCgCGCC---AGCUG- -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.