miRNA display CGI


Results 1 - 15 of 15 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
28501 5' -56.9 NC_005946.1 + 16035 0.66 0.829952
Target:  5'- cUCUGCCCGGuGGcCUCgccgGGGACgaugaCCg -3'
miRNA:   3'- cAGGUGGGCC-CCuGAGaa--CUCUGa----GG- -5'
28501 5' -56.9 NC_005946.1 + 20971 0.66 0.829952
Target:  5'- uUCuCugCCGcGGGACUCgUGAcaGuCUCCu -3'
miRNA:   3'- cAG-GugGGC-CCCUGAGaACU--CuGAGG- -5'
28501 5' -56.9 NC_005946.1 + 67588 0.66 0.829952
Target:  5'- aUCCcgaugGCCgGGGGAaagucUUCUUGGGucuuuaGCUCCa -3'
miRNA:   3'- cAGG-----UGGgCCCCU-----GAGAACUC------UGAGG- -5'
28501 5' -56.9 NC_005946.1 + 71736 0.66 0.821382
Target:  5'- uGUCgUACCUcaggaGGGGACcgUUGAGAgUCCa -3'
miRNA:   3'- -CAG-GUGGG-----CCCCUGagAACUCUgAGG- -5'
28501 5' -56.9 NC_005946.1 + 531 0.66 0.794647
Target:  5'- uGUUCuuCagaGGGGAUUCUUGuGGCUUCu -3'
miRNA:   3'- -CAGGugGg--CCCCUGAGAACuCUGAGG- -5'
28501 5' -56.9 NC_005946.1 + 96049 0.66 0.790975
Target:  5'- aGUCCcacACCCuGGGGuaguggggGAGGCUCCu -3'
miRNA:   3'- -CAGG---UGGG-CCCCugagaa--CUCUGAGG- -5'
28501 5' -56.9 NC_005946.1 + 66582 0.67 0.776059
Target:  5'- uUCCuucaCCGGGGA-UCUgaccggcgaUGGGACUCUg -3'
miRNA:   3'- cAGGug--GGCCCCUgAGA---------ACUCUGAGG- -5'
28501 5' -56.9 NC_005946.1 + 83839 0.67 0.756943
Target:  5'- gGUCCugCCGguccuGGGAUUCcUGguuGGAUUCCu -3'
miRNA:   3'- -CAGGugGGC-----CCCUGAGaAC---UCUGAGG- -5'
28501 5' -56.9 NC_005946.1 + 63747 0.67 0.737376
Target:  5'- cGUCC-CCaCGGGGACcgUCUgcgcguccaUGucGGCUCCa -3'
miRNA:   3'- -CAGGuGG-GCCCCUG--AGA---------ACu-CUGAGG- -5'
28501 5' -56.9 NC_005946.1 + 69413 0.68 0.727448
Target:  5'- -aCCAgCUGGGGaACUCUccGGGGgUCCu -3'
miRNA:   3'- caGGUgGGCCCC-UGAGAa-CUCUgAGG- -5'
28501 5' -56.9 NC_005946.1 + 105361 0.68 0.707347
Target:  5'- uUCCACUccaCGGGGGCUUUggGAcACUCUa -3'
miRNA:   3'- cAGGUGG---GCCCCUGAGAa-CUcUGAGG- -5'
28501 5' -56.9 NC_005946.1 + 94618 0.69 0.62507
Target:  5'- aGUgCACCCGGcucccgucaGGAUgUCUaGGGACUCCu -3'
miRNA:   3'- -CAgGUGGGCC---------CCUG-AGAaCUCUGAGG- -5'
28501 5' -56.9 NC_005946.1 + 64415 0.7 0.573536
Target:  5'- -gCCGCCaCGGGGACccgcgucaccCUUGGGAC-CCu -3'
miRNA:   3'- caGGUGG-GCCCCUGa---------GAACUCUGaGG- -5'
28501 5' -56.9 NC_005946.1 + 34600 0.72 0.474367
Target:  5'- cUCCACUCGGGcucGACgggCagGAGGCUCCc -3'
miRNA:   3'- cAGGUGGGCCC---CUGa--GaaCUCUGAGG- -5'
28501 5' -56.9 NC_005946.1 + 96925 0.73 0.428058
Target:  5'- uGUCUugCCGGGGAgcCUCUUGAccCUCa -3'
miRNA:   3'- -CAGGugGGCCCCU--GAGAACUcuGAGg -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.