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
26666 5' -55.8 NC_005808.1 + 23330 0.66 0.63376
Target:  5'- cGCCGACAccgaccugaccaugcUguuccccagCGAGGCGCGGUcGguGGc -3'
miRNA:   3'- cCGGCUGU---------------A---------GCUCCGCGUCAaCguCU- -5'
26666 5' -55.8 NC_005808.1 + 37413 0.66 0.629288
Target:  5'- cGGCCGGCAggUCGGGGUcgGCAa-UGCGu- -3'
miRNA:   3'- -CCGGCUGU--AGCUCCG--CGUcaACGUcu -5'
26666 5' -55.8 NC_005808.1 + 37341 0.66 0.629288
Target:  5'- aGGCCGcgaGCA-CGuGGCGCAGcaugGCAu- -3'
miRNA:   3'- -CCGGC---UGUaGCuCCGCGUCaa--CGUcu -5'
26666 5' -55.8 NC_005808.1 + 40299 0.66 0.629288
Target:  5'- gGGCaaaCGGCAacgguUCGAGGCGCAcGgcaugGCGGu -3'
miRNA:   3'- -CCG---GCUGU-----AGCUCCGCGU-Caa---CGUCu -5'
26666 5' -55.8 NC_005808.1 + 15002 0.66 0.629288
Target:  5'- cGCCGA-GUUGGGcGCGCAGUcgGCAc- -3'
miRNA:   3'- cCGGCUgUAGCUC-CGCGUCAa-CGUcu -5'
26666 5' -55.8 NC_005808.1 + 829 0.66 0.618112
Target:  5'- uGCCGaACGUCGgccAGGUggGCAGguuggUGUAGAa -3'
miRNA:   3'- cCGGC-UGUAGC---UCCG--CGUCa----ACGUCU- -5'
26666 5' -55.8 NC_005808.1 + 10818 0.66 0.606948
Target:  5'- gGGCCGAaGUCGAGcGCGCccuuGgcgaGCAGc -3'
miRNA:   3'- -CCGGCUgUAGCUC-CGCGu---Caa--CGUCu -5'
26666 5' -55.8 NC_005808.1 + 36522 0.66 0.595806
Target:  5'- cGCuCGACGacuUCGAGGCGguGUgaugaGCAc- -3'
miRNA:   3'- cCG-GCUGU---AGCUCCGCguCAa----CGUcu -5'
26666 5' -55.8 NC_005808.1 + 17449 0.66 0.584696
Target:  5'- cGCCaGCAUCGAGGC-CAGgUGCc-- -3'
miRNA:   3'- cCGGcUGUAGCUCCGcGUCaACGucu -5'
26666 5' -55.8 NC_005808.1 + 8127 0.66 0.584696
Target:  5'- cGGCCGGCGUUGguuguGGGCGU----GCGGGu -3'
miRNA:   3'- -CCGGCUGUAGC-----UCCGCGucaaCGUCU- -5'
26666 5' -55.8 NC_005808.1 + 19634 0.66 0.584696
Target:  5'- gGGCCgcGACAUCGGccaGCGUcgGGUUGguGGu -3'
miRNA:   3'- -CCGG--CUGUAGCUc--CGCG--UCAACguCU- -5'
26666 5' -55.8 NC_005808.1 + 24846 0.66 0.584696
Target:  5'- cGCgGGCAUCGAGGaCGacccGUgGCAGGu -3'
miRNA:   3'- cCGgCUGUAGCUCC-GCgu--CAaCGUCU- -5'
26666 5' -55.8 NC_005808.1 + 885 0.66 0.584696
Target:  5'- uGGCCGACGuUCGgcaagggcuGGGCGCGGc-GCGu- -3'
miRNA:   3'- -CCGGCUGU-AGC---------UCCGCGUCaaCGUcu -5'
26666 5' -55.8 NC_005808.1 + 15816 0.66 0.584696
Target:  5'- uGG-CGGCAaCGAGGUGCGGUaUGUcGAg -3'
miRNA:   3'- -CCgGCUGUaGCUCCGCGUCA-ACGuCU- -5'
26666 5' -55.8 NC_005808.1 + 24802 0.66 0.584696
Target:  5'- gGGUCGagGCcgCGcAGGCGCGGUggaaGCGGc -3'
miRNA:   3'- -CCGGC--UGuaGC-UCCGCGUCAa---CGUCu -5'
26666 5' -55.8 NC_005808.1 + 10867 0.66 0.584696
Target:  5'- aGCCG-CGcCGAGGCGCAGcaguacaUGCAa- -3'
miRNA:   3'- cCGGCuGUaGCUCCGCGUCa------ACGUcu -5'
26666 5' -55.8 NC_005808.1 + 39890 0.67 0.573628
Target:  5'- uGCCGACAccUCGAcguuGCGCAGgUGCGc- -3'
miRNA:   3'- cCGGCUGU--AGCUc---CGCGUCaACGUcu -5'
26666 5' -55.8 NC_005808.1 + 6739 0.67 0.529928
Target:  5'- cGGCCuGaACAUCGGcguGGCGCAGaccaugagcGCGGAc -3'
miRNA:   3'- -CCGG-C-UGUAGCU---CCGCGUCaa-------CGUCU- -5'
26666 5' -55.8 NC_005808.1 + 9047 0.67 0.529928
Target:  5'- cGCgCGGCGaggaaaUCGAGGCGCuuaccgacgUGCGGAu -3'
miRNA:   3'- cCG-GCUGU------AGCUCCGCGuca------ACGUCU- -5'
26666 5' -55.8 NC_005808.1 + 6371 0.67 0.519185
Target:  5'- cGGCCcACGUCGgcaaucAGGCGCAGgccgGCcGGc -3'
miRNA:   3'- -CCGGcUGUAGC------UCCGCGUCaa--CGuCU- -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.