miRNA display CGI


Results 1 - 20 of 29 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
1607 3' -58 NC_001347.2 + 136025 0.66 0.905168
Target:  5'- cGGAGcgGGCCGCGCccggugcccGGcCCACG-GCCc- -3'
miRNA:   3'- -CCUC--UCGGCGUG---------UCuGGUGCaCGGaa -5'
1607 3' -58 NC_001347.2 + 78392 0.66 0.899032
Target:  5'- gGGAGGaCC-CGCGGGCCACGUcgggcugcuGCCg- -3'
miRNA:   3'- -CCUCUcGGcGUGUCUGGUGCA---------CGGaa -5'
1607 3' -58 NC_001347.2 + 21782 0.66 0.899032
Target:  5'- gGGAcuuuGGCUGCuGCGGGCCGCG-GCCc- -3'
miRNA:   3'- -CCUc---UCGGCG-UGUCUGGUGCaCGGaa -5'
1607 3' -58 NC_001347.2 + 154695 0.66 0.899032
Target:  5'- uGAGcGCCGCACGGGgCGCGUaaCUg -3'
miRNA:   3'- cCUCuCGGCGUGUCUgGUGCAcgGAa -5'
1607 3' -58 NC_001347.2 + 126316 0.66 0.886112
Target:  5'- cGAGGGCCagGUGCugcuGACCAUG-GCCUa -3'
miRNA:   3'- cCUCUCGG--CGUGu---CUGGUGCaCGGAa -5'
1607 3' -58 NC_001347.2 + 152023 0.66 0.885443
Target:  5'- aGGAGAGCCggcaaagaagaggGCGCGGAaaCCAcCGUcgGCCg- -3'
miRNA:   3'- -CCUCUCGG-------------CGUGUCU--GGU-GCA--CGGaa -5'
1607 3' -58 NC_001347.2 + 165544 0.66 0.879333
Target:  5'- -aAGGGCCGCG-AGAgCGCGUGCa-- -3'
miRNA:   3'- ccUCUCGGCGUgUCUgGUGCACGgaa -5'
1607 3' -58 NC_001347.2 + 987 0.66 0.879333
Target:  5'- gGGAGcGCCGUcacaGCGGGCaCugGUGCg-- -3'
miRNA:   3'- -CCUCuCGGCG----UGUCUG-GugCACGgaa -5'
1607 3' -58 NC_001347.2 + 158677 0.66 0.878644
Target:  5'- cGGGGcGCgCGCugguuaaACAGACCGCcUGCCa- -3'
miRNA:   3'- -CCUCuCG-GCG-------UGUCUGGUGcACGGaa -5'
1607 3' -58 NC_001347.2 + 8784 0.67 0.857774
Target:  5'- cGGcGGAGCCGgcucagaGCGGACCACGguugauugUGCCc- -3'
miRNA:   3'- -CC-UCUCGGCg------UGUCUGGUGC--------ACGGaa -5'
1607 3' -58 NC_001347.2 + 85551 0.67 0.842435
Target:  5'- aGAGcGCCGCgucgugcgaaaGCAGAaacUCGCGUGCCg- -3'
miRNA:   3'- cCUCuCGGCG-----------UGUCU---GGUGCACGGaa -5'
1607 3' -58 NC_001347.2 + 135457 0.67 0.834493
Target:  5'- aGGGAGCCGcCGCgAGACC-CGgaaGCCg- -3'
miRNA:   3'- cCUCUCGGC-GUG-UCUGGuGCa--CGGaa -5'
1607 3' -58 NC_001347.2 + 2058 0.67 0.825557
Target:  5'- cGGGAGCCGUGgGGuCCGCuguaccuGUGCCUc -3'
miRNA:   3'- cCUCUCGGCGUgUCuGGUG-------CACGGAa -5'
1607 3' -58 NC_001347.2 + 53524 0.68 0.818096
Target:  5'- uGGAGAGCUGgGCccacgucuuccgGGACUacaGCGUGUCUUu -3'
miRNA:   3'- -CCUCUCGGCgUG------------UCUGG---UGCACGGAA- -5'
1607 3' -58 NC_001347.2 + 18457 0.68 0.798459
Target:  5'- cGAGGGCCuGCGCGccugccggccuuuuGACCACaUGCCg- -3'
miRNA:   3'- cCUCUCGG-CGUGU--------------CUGGUGcACGGaa -5'
1607 3' -58 NC_001347.2 + 198974 0.68 0.792329
Target:  5'- cGGuGAGCCGCggcgauucggGCGuGCCGCGaUGCCg- -3'
miRNA:   3'- -CCuCUCGGCG----------UGUcUGGUGC-ACGGaa -5'
1607 3' -58 NC_001347.2 + 110470 0.68 0.77446
Target:  5'- ----uGCCGC-UGGACCGCGUGCCc- -3'
miRNA:   3'- ccucuCGGCGuGUCUGGUGCACGGaa -5'
1607 3' -58 NC_001347.2 + 139283 0.69 0.764424
Target:  5'- uGGAGGcuuacauGcCCGagGCGGAUCGCGUGCCUa -3'
miRNA:   3'- -CCUCU-------C-GGCg-UGUCUGGUGCACGGAa -5'
1607 3' -58 NC_001347.2 + 79702 0.7 0.689095
Target:  5'- -aAGAGCCGCACAuuGugCaguACGUGCCc- -3'
miRNA:   3'- ccUCUCGGCGUGU--CugG---UGCACGGaa -5'
1607 3' -58 NC_001347.2 + 166636 0.71 0.629798
Target:  5'- cGAGAGgCGCGCccGGCCACGcGCCa- -3'
miRNA:   3'- cCUCUCgGCGUGu-CUGGUGCaCGGaa -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.