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
11990 5' -60.6 NC_003278.1 + 17135 1.07 0.000191
Target:  5'- cACCAGCGGUACGCUGCCCGCAAGCCUg -3'
miRNA:   3'- -UGGUCGCCAUGCGACGGGCGUUCGGA- -5'
11990 5' -60.6 NC_003278.1 + 21850 0.81 0.021026
Target:  5'- gUCuGCGGUGuCGCUGCCCGCGccGGCCUg -3'
miRNA:   3'- uGGuCGCCAU-GCGACGGGCGU--UCGGA- -5'
11990 5' -60.6 NC_003278.1 + 14940 0.74 0.081761
Target:  5'- -gCAGUGGcUGCGUUGCCCGUAaucgaGGCCg -3'
miRNA:   3'- ugGUCGCC-AUGCGACGGGCGU-----UCGGa -5'
11990 5' -60.6 NC_003278.1 + 34983 0.71 0.125586
Target:  5'- cCCAGCGuGUGCGagagaGCCUGgAAGCCUg -3'
miRNA:   3'- uGGUCGC-CAUGCga---CGGGCgUUCGGA- -5'
11990 5' -60.6 NC_003278.1 + 29804 0.71 0.140531
Target:  5'- aGCCAGCGG--CGCagGCCCGCcuuGGUCa -3'
miRNA:   3'- -UGGUCGCCauGCGa-CGGGCGu--UCGGa -5'
11990 5' -60.6 NC_003278.1 + 7829 0.7 0.144514
Target:  5'- cGCCGGCGGUGCGa---CCGUAGuGCCg -3'
miRNA:   3'- -UGGUCGCCAUGCgacgGGCGUU-CGGa -5'
11990 5' -60.6 NC_003278.1 + 6670 0.7 0.1486
Target:  5'- aGCCGGCGGUACGCgcgaagcgGUCgGgCAuGCCa -3'
miRNA:   3'- -UGGUCGCCAUGCGa-------CGGgC-GUuCGGa -5'
11990 5' -60.6 NC_003278.1 + 19722 0.7 0.157089
Target:  5'- aGCC-GCGGcauccagaGCGCUGCCgCGCuGGCCg -3'
miRNA:   3'- -UGGuCGCCa-------UGCGACGG-GCGuUCGGa -5'
11990 5' -60.6 NC_003278.1 + 22973 0.69 0.177323
Target:  5'- uGCCAGCGGccugGCGCUGC-CGCAcaucaaccucacccGCCa -3'
miRNA:   3'- -UGGUCGCCa---UGCGACGgGCGUu-------------CGGa -5'
11990 5' -60.6 NC_003278.1 + 11956 0.68 0.204742
Target:  5'- uCCAuucGCGGUcgGCGCcgGCCCGCGgcgaugcccaaggcAGCCa -3'
miRNA:   3'- uGGU---CGCCA--UGCGa-CGGGCGU--------------UCGGa -5'
11990 5' -60.6 NC_003278.1 + 23022 0.68 0.22962
Target:  5'- gACCAGCac--CGCUaCCUGCAGGCCg -3'
miRNA:   3'- -UGGUCGccauGCGAcGGGCGUUCGGa -5'
11990 5' -60.6 NC_003278.1 + 8377 0.67 0.23576
Target:  5'- uACCAGCGcUGCgGC-GCCCGCuuccGCCg -3'
miRNA:   3'- -UGGUCGCcAUG-CGaCGGGCGuu--CGGa -5'
11990 5' -60.6 NC_003278.1 + 6038 0.67 0.23576
Target:  5'- cGCCGGUGGaagugcccUACG-UGCCCGagaaGGGCCUc -3'
miRNA:   3'- -UGGUCGCC--------AUGCgACGGGCg---UUCGGA- -5'
11990 5' -60.6 NC_003278.1 + 31706 0.67 0.23576
Target:  5'- gACCcGCGG-ACGC-GCCCGguugAAGCCUg -3'
miRNA:   3'- -UGGuCGCCaUGCGaCGGGCg---UUCGGA- -5'
11990 5' -60.6 NC_003278.1 + 13272 0.67 0.23576
Target:  5'- gGCCAGCaGGUccgccgggGCGCUGCCguUGCccugggcGGCCUg -3'
miRNA:   3'- -UGGUCG-CCA--------UGCGACGG--GCGu------UCGGA- -5'
11990 5' -60.6 NC_003278.1 + 8405 0.67 0.242037
Target:  5'- -gCAGCGucuCGUUGCUCGCcAGCCUg -3'
miRNA:   3'- ugGUCGCcauGCGACGGGCGuUCGGA- -5'
11990 5' -60.6 NC_003278.1 + 3395 0.67 0.255008
Target:  5'- uCCGGCGGUaGCGCU-UCUGCAucGCCa -3'
miRNA:   3'- uGGUCGCCA-UGCGAcGGGCGUu-CGGa -5'
11990 5' -60.6 NC_003278.1 + 26509 0.67 0.255008
Target:  5'- gGCUGcGCGGUGgGCUucGCCaCGCAGGCaCUu -3'
miRNA:   3'- -UGGU-CGCCAUgCGA--CGG-GCGUUCG-GA- -5'
11990 5' -60.6 NC_003278.1 + 16789 0.67 0.268544
Target:  5'- -gCGGCGGUAC---GCCUGCAGcGCCUg -3'
miRNA:   3'- ugGUCGCCAUGcgaCGGGCGUU-CGGA- -5'
11990 5' -60.6 NC_003278.1 + 12336 0.67 0.268544
Target:  5'- uACCGGCGGcGCcCUcGCCCGCuuGGCa- -3'
miRNA:   3'- -UGGUCGCCaUGcGA-CGGGCGu-UCGga -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.