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
16656 3' -57.1 NC_004156.1 + 39156 0.66 0.941554
Target:  5'- uGUGCAAG-CCA-CGAUAaaGGAGCa- -3'
miRNA:   3'- -CACGUUCuGGUgGCUGUggCCUCGcg -5'
16656 3' -57.1 NC_004156.1 + 206975 0.66 0.941554
Target:  5'- -gGCAGacGACCugUG-CACCGagaGAGCGUa -3'
miRNA:   3'- caCGUU--CUGGugGCuGUGGC---CUCGCG- -5'
16656 3' -57.1 NC_004156.1 + 35341 0.66 0.941554
Target:  5'- aGUGUGAacaauucaaaauGugCACCGuauCGuuGGAGUGCa -3'
miRNA:   3'- -CACGUU------------CugGUGGCu--GUggCCUCGCG- -5'
16656 3' -57.1 NC_004156.1 + 146591 0.66 0.941554
Target:  5'- uUGUAGGAuuCCACCcuacacuuGGCAUCGGAGagaaGCc -3'
miRNA:   3'- cACGUUCU--GGUGG--------CUGUGGCCUCg---CG- -5'
16656 3' -57.1 NC_004156.1 + 107229 0.66 0.936986
Target:  5'- -cGCAGGAgUACCGAgucugaUGCCGcuuggucugaGAGCGCu -3'
miRNA:   3'- caCGUUCUgGUGGCU------GUGGC----------CUCGCG- -5'
16656 3' -57.1 NC_004156.1 + 63065 0.66 0.932197
Target:  5'- -cGCAAGGCUAgagaCGACGCCagcGGugccaaaaAGCGCa -3'
miRNA:   3'- caCGUUCUGGUg---GCUGUGG---CC--------UCGCG- -5'
16656 3' -57.1 NC_004156.1 + 180683 0.66 0.932197
Target:  5'- cGUGCAAGuucaacaacACCACCaACaACC-GAGUGCu -3'
miRNA:   3'- -CACGUUC---------UGGUGGcUG-UGGcCUCGCG- -5'
16656 3' -57.1 NC_004156.1 + 50098 0.66 0.932197
Target:  5'- -aGCAAGAauucgaCACCaGGCAUCGGcaacacagGGUGCg -3'
miRNA:   3'- caCGUUCUg-----GUGG-CUGUGGCC--------UCGCG- -5'
16656 3' -57.1 NC_004156.1 + 152544 0.66 0.927185
Target:  5'- -aGCGAGACCAgCGAUugcuguAUCGGucugaAGCGUu -3'
miRNA:   3'- caCGUUCUGGUgGCUG------UGGCC-----UCGCG- -5'
16656 3' -57.1 NC_004156.1 + 147370 0.66 0.92195
Target:  5'- uGUGCAuGACCuAUCGugAuCCGGAcaCGCa -3'
miRNA:   3'- -CACGUuCUGG-UGGCugU-GGCCUc-GCG- -5'
16656 3' -57.1 NC_004156.1 + 164360 0.66 0.92195
Target:  5'- aUGCAAGGCUugUcGGCgAUgGGGGUGCu -3'
miRNA:   3'- cACGUUCUGGugG-CUG-UGgCCUCGCG- -5'
16656 3' -57.1 NC_004156.1 + 139476 0.66 0.92195
Target:  5'- -gGC-AGACUguAUCGACACCGuacGCGCa -3'
miRNA:   3'- caCGuUCUGG--UGGCUGUGGCcu-CGCG- -5'
16656 3' -57.1 NC_004156.1 + 204205 0.66 0.916493
Target:  5'- -aGuCGAGACUcgauucguuuAUCGGCaACUGGAGCGUg -3'
miRNA:   3'- caC-GUUCUGG----------UGGCUG-UGGCCUCGCG- -5'
16656 3' -57.1 NC_004156.1 + 123987 0.67 0.898797
Target:  5'- -cGCAGGcACCAaacuugaCGGUACCGGAGUGg -3'
miRNA:   3'- caCGUUC-UGGUg------GCUGUGGCCUCGCg -5'
16656 3' -57.1 NC_004156.1 + 205744 0.67 0.898797
Target:  5'- aGUGCAuguuuGAUCACCGGCAauaGGAuCGUg -3'
miRNA:   3'- -CACGUu----CUGGUGGCUGUgg-CCUcGCG- -5'
16656 3' -57.1 NC_004156.1 + 96422 0.67 0.885918
Target:  5'- ---uGGGugCACUGgguGCACUGGGGUGCg -3'
miRNA:   3'- cacgUUCugGUGGC---UGUGGCCUCGCG- -5'
16656 3' -57.1 NC_004156.1 + 173194 0.68 0.872203
Target:  5'- cGUGCAAGuCUACCGAguuggccaaCACCaauGuGCGCa -3'
miRNA:   3'- -CACGUUCuGGUGGCU---------GUGGc--CuCGCG- -5'
16656 3' -57.1 NC_004156.1 + 124579 0.68 0.872203
Target:  5'- -cGCc--GCCGCCGACGCCaagggacgagauGGAGCuGCu -3'
miRNA:   3'- caCGuucUGGUGGCUGUGG------------CCUCG-CG- -5'
16656 3' -57.1 NC_004156.1 + 142851 0.68 0.850141
Target:  5'- aUGCAAGA--AgCGGCACUGGuGUGCg -3'
miRNA:   3'- cACGUUCUggUgGCUGUGGCCuCGCG- -5'
16656 3' -57.1 NC_004156.1 + 106265 0.68 0.850141
Target:  5'- cUGCccgacgGAGGCCACCuGACGCaCGGAuucCGCa -3'
miRNA:   3'- cACG------UUCUGGUGG-CUGUG-GCCUc--GCG- -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.