miRNA display CGI


Results 1 - 20 of 21 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
7162 3' -59.2 NC_001900.1 + 27993 0.66 0.478415
Target:  5'- cCCCGGCgGGCAcGAAgaucacgccguucGGGccgguguaACCGGGuGCg -3'
miRNA:   3'- uGGGCCG-UCGU-CUU-------------UCC--------UGGCCCuCG- -5'
7162 3' -59.2 NC_001900.1 + 39275 0.66 0.46945
Target:  5'- gUCCGGUucggaAGCGGGAccaccGGGACCGcgccGAGCc -3'
miRNA:   3'- uGGGCCG-----UCGUCUU-----UCCUGGCc---CUCG- -5'
7162 3' -59.2 NC_001900.1 + 34475 0.66 0.46945
Target:  5'- cCCCGGCgAGUcGAgggucuucucgGAGGAUC-GGAGCa -3'
miRNA:   3'- uGGGCCG-UCGuCU-----------UUCCUGGcCCUCG- -5'
7162 3' -59.2 NC_001900.1 + 1174 0.66 0.449843
Target:  5'- --gCGGCGGUGGAgccgccggAAGcGGCCGGG-GCg -3'
miRNA:   3'- uggGCCGUCGUCU--------UUC-CUGGCCCuCG- -5'
7162 3' -59.2 NC_001900.1 + 32127 0.66 0.448875
Target:  5'- uCCUGGUAGguGuuGGGAgCGaucucccGGAGCu -3'
miRNA:   3'- uGGGCCGUCguCuuUCCUgGC-------CCUCG- -5'
7162 3' -59.2 NC_001900.1 + 30714 0.66 0.44021
Target:  5'- aACCCacCGGCcccGAAAGG-CCGGGGGUc -3'
miRNA:   3'- -UGGGccGUCGu--CUUUCCuGGCCCUCG- -5'
7162 3' -59.2 NC_001900.1 + 2211 0.66 0.44021
Target:  5'- cACCaaguggGGUGGCuGGGAGGGCCuGGAGa -3'
miRNA:   3'- -UGGg-----CCGUCGuCUUUCCUGGcCCUCg -5'
7162 3' -59.2 NC_001900.1 + 8391 0.67 0.421303
Target:  5'- cCCCGGagcuGCAccgugcGGACUGGGAGUg -3'
miRNA:   3'- uGGGCCgu--CGUcuuu--CCUGGCCCUCG- -5'
7162 3' -59.2 NC_001900.1 + 26083 0.67 0.421303
Target:  5'- cGCCCGGacaagGGCGGGGgucaucucGGcGACCGGG-GUg -3'
miRNA:   3'- -UGGGCCg----UCGUCUU--------UC-CUGGCCCuCG- -5'
7162 3' -59.2 NC_001900.1 + 14511 0.67 0.421303
Target:  5'- cGCCauCGGCGGCAccgucucguaaGGAGGACacauGGGGGCg -3'
miRNA:   3'- -UGG--GCCGUCGUc----------UUUCCUGg---CCCUCG- -5'
7162 3' -59.2 NC_001900.1 + 42415 0.67 0.402895
Target:  5'- -aUCGGCAgGCAGGccaggcccgaGGGGAUCGGGcuGGCc -3'
miRNA:   3'- ugGGCCGU-CGUCU----------UUCCUGGCCC--UCG- -5'
7162 3' -59.2 NC_001900.1 + 7703 0.68 0.342635
Target:  5'- gAUCCGGCGGCucAAGGGAU--GGGGCa -3'
miRNA:   3'- -UGGGCCGUCGucUUUCCUGgcCCUCG- -5'
7162 3' -59.2 NC_001900.1 + 20730 0.69 0.318105
Target:  5'- gACCgaCGGCAGCAagcuguGGcucggcucauuccACCGGGAGCa -3'
miRNA:   3'- -UGG--GCCGUCGUcuuu--CC-------------UGGCCCUCG- -5'
7162 3' -59.2 NC_001900.1 + 22620 0.69 0.311235
Target:  5'- aGCCUguuucgcauGGCAGCaagacGGAGAGGAUgGGGAucGCu -3'
miRNA:   3'- -UGGG---------CCGUCG-----UCUUUCCUGgCCCU--CG- -5'
7162 3' -59.2 NC_001900.1 + 28983 0.69 0.303735
Target:  5'- gGCCCGGaacucgaAGUAGAA---GCCGGGAGg -3'
miRNA:   3'- -UGGGCCg------UCGUCUUuccUGGCCCUCg -5'
7162 3' -59.2 NC_001900.1 + 21684 0.7 0.248082
Target:  5'- uACCCGGUAGCAcccucugggcucuGGAGGGGCUGGcuucguGCu -3'
miRNA:   3'- -UGGGCCGUCGU-------------CUUUCCUGGCCcu----CG- -5'
7162 3' -59.2 NC_001900.1 + 21162 0.7 0.248082
Target:  5'- cGCCaCGGCAGCGgcccagcGAucGGACUGugaaaGGAGCa -3'
miRNA:   3'- -UGG-GCCGUCGU-------CUuuCCUGGC-----CCUCG- -5'
7162 3' -59.2 NC_001900.1 + 23346 0.72 0.202196
Target:  5'- -aCCGGCGGCGGcuacGGAUCGGGcagaGGCu -3'
miRNA:   3'- ugGGCCGUCGUCuuu-CCUGGCCC----UCG- -5'
7162 3' -59.2 NC_001900.1 + 2361 0.72 0.181414
Target:  5'- -gCCGGCucgaagcgucGGCAaGAacuaccgGAGGACUGGGAGCu -3'
miRNA:   3'- ugGGCCG----------UCGU-CU-------UUCCUGGCCCUCG- -5'
7162 3' -59.2 NC_001900.1 + 16775 0.73 0.167877
Target:  5'- uGCUCGGCGGUaAGAAGGGACU--GAGCa -3'
miRNA:   3'- -UGGGCCGUCG-UCUUUCCUGGccCUCG- -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.