miRNA display CGI


Results 1 - 20 of 28 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
22359 3' -52.2 NC_005045.1 + 41861 0.66 0.837324
Target:  5'- cGCACAccucgacgagcugauGGCUGC-UGUCGA--GACUgCCa -3'
miRNA:   3'- -CGUGU---------------UCGGCGuACAGCUucCUGA-GG- -5'
22359 3' -52.2 NC_005045.1 + 26907 0.66 0.83364
Target:  5'- -aACGAGCUggaGUAUGaUCGAcGuGGCUCCg -3'
miRNA:   3'- cgUGUUCGG---CGUAC-AGCUuC-CUGAGG- -5'
22359 3' -52.2 NC_005045.1 + 38411 0.66 0.814691
Target:  5'- gGCGCAGgcggagaaucGCCGUAUcgcGcUGGAGGGCUUCa -3'
miRNA:   3'- -CGUGUU----------CGGCGUA---CaGCUUCCUGAGG- -5'
22359 3' -52.2 NC_005045.1 + 16921 0.66 0.814691
Target:  5'- uGCACAAGCUGCuggaCGAAgcGGACaUCa -3'
miRNA:   3'- -CGUGUUCGGCGuacaGCUU--CCUG-AGg -5'
22359 3' -52.2 NC_005045.1 + 30660 0.66 0.810799
Target:  5'- cGCACGuuGGCgGCGgcgaucuccaGAAGGGCUUCg -3'
miRNA:   3'- -CGUGU--UCGgCGUacag------CUUCCUGAGG- -5'
22359 3' -52.2 NC_005045.1 + 38458 0.66 0.808841
Target:  5'- uGCGCcuGCCGCAUcuccucgcggaggcgGUCGAuguugauGGugUCg -3'
miRNA:   3'- -CGUGuuCGGCGUA---------------CAGCUu------CCugAGg -5'
22359 3' -52.2 NC_005045.1 + 17585 0.66 0.804901
Target:  5'- -gGCAAGCUGCcgaugaaucugAUaGUCGAGGGcUUCCc -3'
miRNA:   3'- cgUGUUCGGCG-----------UA-CAGCUUCCuGAGG- -5'
22359 3' -52.2 NC_005045.1 + 23836 0.66 0.804901
Target:  5'- cCACcaAGGCCGCcaucgGUCGGcugauGGACUCg -3'
miRNA:   3'- cGUG--UUCGGCGua---CAGCUu----CCUGAGg -5'
22359 3' -52.2 NC_005045.1 + 22349 0.66 0.794918
Target:  5'- aGCACuacGGUCGCGgccacGUCGA-GGACUa- -3'
miRNA:   3'- -CGUGu--UCGGCGUa----CAGCUuCCUGAgg -5'
22359 3' -52.2 NC_005045.1 + 17652 0.67 0.774414
Target:  5'- uGCAgUggGCCGCcgagGUC-AAGGGCUaCCu -3'
miRNA:   3'- -CGU-GuuCGGCGua--CAGcUUCCUGA-GG- -5'
22359 3' -52.2 NC_005045.1 + 21164 0.67 0.75328
Target:  5'- cGCACGGGCCGaCGUG----GGGAUcgUCCu -3'
miRNA:   3'- -CGUGUUCGGC-GUACagcuUCCUG--AGG- -5'
22359 3' -52.2 NC_005045.1 + 40004 0.68 0.731614
Target:  5'- uGCAUgauGGGCCGCAgggUGUCGAugauacgacGCUCCu -3'
miRNA:   3'- -CGUG---UUCGGCGU---ACAGCUucc------UGAGG- -5'
22359 3' -52.2 NC_005045.1 + 20984 0.68 0.731614
Target:  5'- aGCACAGGCC-CAUcaguUCGGauGGGGCgCCg -3'
miRNA:   3'- -CGUGUUCGGcGUAc---AGCU--UCCUGaGG- -5'
22359 3' -52.2 NC_005045.1 + 32541 0.68 0.731614
Target:  5'- cGCGCcgaAGGCCGUGUcacGUCGcGGGAUggCCg -3'
miRNA:   3'- -CGUG---UUCGGCGUA---CAGCuUCCUGa-GG- -5'
22359 3' -52.2 NC_005045.1 + 39491 0.68 0.731614
Target:  5'- cGCGCAgcuugAGCUGCAUacgcugcucGUCGGcgaggcuGGugUCCa -3'
miRNA:   3'- -CGUGU-----UCGGCGUA---------CAGCUu------CCugAGG- -5'
22359 3' -52.2 NC_005045.1 + 22820 0.68 0.720614
Target:  5'- aGCACAAGCCGgCua-UCGAGacGGGCcuUCCc -3'
miRNA:   3'- -CGUGUUCGGC-GuacAGCUU--CCUG--AGG- -5'
22359 3' -52.2 NC_005045.1 + 3198 0.68 0.70952
Target:  5'- gGUACGAGguucCUGCaAUGUCGAagauGGGACggCCa -3'
miRNA:   3'- -CGUGUUC----GGCG-UACAGCU----UCCUGa-GG- -5'
22359 3' -52.2 NC_005045.1 + 24764 0.68 0.70952
Target:  5'- cGCcCAGGUCGCG-GUCGAugaAGGuCUCg -3'
miRNA:   3'- -CGuGUUCGGCGUaCAGCU---UCCuGAGg -5'
22359 3' -52.2 NC_005045.1 + 31197 0.68 0.698344
Target:  5'- -aGCAAGCCGCGcagUGguUCGccGAGGACaCCg -3'
miRNA:   3'- cgUGUUCGGCGU---AC--AGC--UUCCUGaGG- -5'
22359 3' -52.2 NC_005045.1 + 40261 0.68 0.675798
Target:  5'- gGCAUggGCCGgGagcGUCGcAAGGGCcgCCc -3'
miRNA:   3'- -CGUGuuCGGCgUa--CAGC-UUCCUGa-GG- -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.