miRNA display CGI


Results 1 - 20 of 45 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
16316 3' -56.4 NC_004084.1 + 8 0.68 0.571497
Target:  5'- -aGUcGGGGGUCUUCGAAgUCGAGgUCg -3'
miRNA:   3'- agCA-UCUCCAGGAGCUUgGGCUCgGG- -5'
16316 3' -56.4 NC_004084.1 + 345 0.67 0.64647
Target:  5'- gUCGUugAGccAGGUggccUCUCGAaacuguGCCgCGAGCCCg -3'
miRNA:   3'- -AGCA--UC--UCCA----GGAGCU------UGG-GCUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 815 0.72 0.351292
Target:  5'- aUCGUGGAGGUCCUCG---UCGAuGCUg -3'
miRNA:   3'- -AGCAUCUCCAGGAGCuugGGCU-CGGg -5'
16316 3' -56.4 NC_004084.1 + 1119 0.67 0.657203
Target:  5'- cUCGUcgaGGAGGUCCUgGAugGCgcgguuguagaCGAGCUCg -3'
miRNA:   3'- -AGCA---UCUCCAGGAgCU--UGg----------GCUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 1497 0.68 0.603506
Target:  5'- -gGUAGAcGUcgcCCUCGAGCUCGaAGCCg -3'
miRNA:   3'- agCAUCUcCA---GGAGCUUGGGC-UCGGg -5'
16316 3' -56.4 NC_004084.1 + 1551 0.71 0.402917
Target:  5'- -aGgcGAcGGcCgUCGAGCCgGAGCCCg -3'
miRNA:   3'- agCauCU-CCaGgAGCUUGGgCUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 2376 0.68 0.592802
Target:  5'- gUCGUAGAacuugaccgGGaccUCCUCGAGCUCGAucuccuuggcgGCUCg -3'
miRNA:   3'- -AGCAUCU---------CC---AGGAGCUUGGGCU-----------CGGG- -5'
16316 3' -56.4 NC_004084.1 + 2432 0.67 0.666843
Target:  5'- aUCGUGGGcGGUgaaucgaCCgUCGAcgagAUCCGAGCCa -3'
miRNA:   3'- -AGCAUCU-CCA-------GG-AGCU----UGGGCUCGGg -5'
16316 3' -56.4 NC_004084.1 + 5008 0.72 0.350472
Target:  5'- cUCGacGAGGUCCUCGAggaguugguagccGCCCGAcgaggGCCg -3'
miRNA:   3'- -AGCauCUCCAGGAGCU-------------UGGGCU-----CGGg -5'
16316 3' -56.4 NC_004084.1 + 5688 0.7 0.458127
Target:  5'- gUCGUcGAGGUCCgcuggguugaguUCGAggacgucGCUCGGGCCg -3'
miRNA:   3'- -AGCAuCUCCAGG------------AGCU-------UGGGCUCGGg -5'
16316 3' -56.4 NC_004084.1 + 8607 0.71 0.43047
Target:  5'- cUCGUcGAGGcugUCCUCGAGgCCGAucugGCCg -3'
miRNA:   3'- -AGCAuCUCC---AGGAGCUUgGGCU----CGGg -5'
16316 3' -56.4 NC_004084.1 + 9874 0.73 0.304539
Target:  5'- gCGacGAGGUUCUUGAACCCu-GCCCg -3'
miRNA:   3'- aGCauCUCCAGGAGCUUGGGcuCGGG- -5'
16316 3' -56.4 NC_004084.1 + 10163 0.66 0.699813
Target:  5'- cCGgcucGAGGUUCUCGGAauCCC-AGUCCu -3'
miRNA:   3'- aGCau--CUCCAGGAGCUU--GGGcUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 12864 0.66 0.697701
Target:  5'- gCGUAcuccgcuucGAGGUCCUCGcgccaacccauCCCGGcGUCCu -3'
miRNA:   3'- aGCAU---------CUCCAGGAGCuu---------GGGCU-CGGG- -5'
16316 3' -56.4 NC_004084.1 + 14273 0.74 0.290053
Target:  5'- -gGUGGAGGUCCUCGucguCgCGAGCg- -3'
miRNA:   3'- agCAUCUCCAGGAGCuu--GgGCUCGgg -5'
16316 3' -56.4 NC_004084.1 + 16657 0.7 0.488707
Target:  5'- gUCGUccgGGAGGUCCUCGucGCCgGcgucGUCCc -3'
miRNA:   3'- -AGCA---UCUCCAGGAGCu-UGGgCu---CGGG- -5'
16316 3' -56.4 NC_004084.1 + 17648 0.66 0.678592
Target:  5'- aUCGUucGAGG-CCUgGGcgacACCCGAGCa- -3'
miRNA:   3'- -AGCAu-CUCCaGGAgCU----UGGGCUCGgg -5'
16316 3' -56.4 NC_004084.1 + 17823 0.73 0.297228
Target:  5'- uUUGaAGAGGUCCgaGAAgCCGAGCUCg -3'
miRNA:   3'- -AGCaUCUCCAGGagCUUgGGCUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 18360 0.66 0.678592
Target:  5'- aCGUucgcGGGGUCgacggCUCGGACgUGcAGCCCg -3'
miRNA:   3'- aGCAu---CUCCAG-----GAGCUUGgGC-UCGGG- -5'
16316 3' -56.4 NC_004084.1 + 20027 0.67 0.667913
Target:  5'- cCGUAcGGuuGGUCCUCGGucgccuuCCCGcGCUCg -3'
miRNA:   3'- aGCAU-CU--CCAGGAGCUu------GGGCuCGGG- -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.