miRNA display CGI


Results 1 - 20 of 27 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
12155 5' -52.8 NC_003309.1 + 10828 0.66 0.846841
Target:  5'- gGCucGCGCGAggcCGUGAUCCGUCu- -3'
miRNA:   3'- aCGu-CGUGUUgaaGCGCUAGGCAGcu -5'
12155 5' -52.8 NC_003309.1 + 12245 0.66 0.846841
Target:  5'- aGCuucuuGCGCuuGCUgCGCaGAUCCGUCa- -3'
miRNA:   3'- aCGu----CGUGu-UGAaGCG-CUAGGCAGcu -5'
12155 5' -52.8 NC_003309.1 + 26827 0.66 0.846841
Target:  5'- aGCcccGGCAUAAUUUgCGCGAUCCaguauUCGGu -3'
miRNA:   3'- aCG---UCGUGUUGAA-GCGCUAGGc----AGCU- -5'
12155 5' -52.8 NC_003309.1 + 43639 0.66 0.844198
Target:  5'- cGCAGCGucgguuccuggcCGAUcUCGCGGUgcuuguccgggugcCCGUCGGg -3'
miRNA:   3'- aCGUCGU------------GUUGaAGCGCUA--------------GGCAGCU- -5'
12155 5' -52.8 NC_003309.1 + 16023 0.66 0.83795
Target:  5'- cGCGGCgGCGuagucaucggauGCgagCGCGAauuggUCCGUCGGc -3'
miRNA:   3'- aCGUCG-UGU------------UGaa-GCGCU-----AGGCAGCU- -5'
12155 5' -52.8 NC_003309.1 + 1213 0.66 0.83795
Target:  5'- cGCA-CACGACggCGaCGcgCCGUCGc -3'
miRNA:   3'- aCGUcGUGUUGaaGC-GCuaGGCAGCu -5'
12155 5' -52.8 NC_003309.1 + 3936 0.66 0.828833
Target:  5'- gGCAGC-CAuCUgCGCGccgCUGUCGAa -3'
miRNA:   3'- aCGUCGuGUuGAaGCGCua-GGCAGCU- -5'
12155 5' -52.8 NC_003309.1 + 20554 0.66 0.809963
Target:  5'- -cCGGcCACAGCgugUCGU--UCCGUCGAg -3'
miRNA:   3'- acGUC-GUGUUGa--AGCGcuAGGCAGCU- -5'
12155 5' -52.8 NC_003309.1 + 2462 0.67 0.800231
Target:  5'- cGCAGCGCgAGCcgcCGCGAgaUCCGcaaCGAa -3'
miRNA:   3'- aCGUCGUG-UUGaa-GCGCU--AGGCa--GCU- -5'
12155 5' -52.8 NC_003309.1 + 579 0.67 0.790316
Target:  5'- uUGCcgaGCAGCUUCGCGAaagggUUGUCGGg -3'
miRNA:   3'- -ACGucgUGUUGAAGCGCUa----GGCAGCU- -5'
12155 5' -52.8 NC_003309.1 + 16947 0.67 0.78023
Target:  5'- gGCuGCGCGAaaccgaacgUCGCGAUCgCGcCGAc -3'
miRNA:   3'- aCGuCGUGUUga-------AGCGCUAG-GCaGCU- -5'
12155 5' -52.8 NC_003309.1 + 10237 0.67 0.78023
Target:  5'- aGCGaCACGccgaGCUUCaCGAUgCCGUCGAg -3'
miRNA:   3'- aCGUcGUGU----UGAAGcGCUA-GGCAGCU- -5'
12155 5' -52.8 NC_003309.1 + 18470 0.67 0.777172
Target:  5'- cGUccuGCACGGCUUCGacagccugcuguacUGGUUCGUCGGa -3'
miRNA:   3'- aCGu--CGUGUUGAAGC--------------GCUAGGCAGCU- -5'
12155 5' -52.8 NC_003309.1 + 18707 0.67 0.759588
Target:  5'- cUGCGGCGCGgauACggcCGcCGAUCCGgCGGc -3'
miRNA:   3'- -ACGUCGUGU---UGaa-GC-GCUAGGCaGCU- -5'
12155 5' -52.8 NC_003309.1 + 51595 0.67 0.759588
Target:  5'- uUGCAGUGCAGCggcaaaCGCGAUgcccaCCG-CGAu -3'
miRNA:   3'- -ACGUCGUGUUGaa----GCGCUA-----GGCaGCU- -5'
12155 5' -52.8 NC_003309.1 + 16433 0.67 0.747997
Target:  5'- aGCAGCACGucgccgaccugcaACgucacgUCGCGGccgaCGUCGAg -3'
miRNA:   3'- aCGUCGUGU-------------UGa-----AGCGCUag--GCAGCU- -5'
12155 5' -52.8 NC_003309.1 + 1778 0.68 0.731956
Target:  5'- cGCGGCGCAACgcagaaguaaugcCGCcgcCCGUCGAu -3'
miRNA:   3'- aCGUCGUGUUGaa-----------GCGcuaGGCAGCU- -5'
12155 5' -52.8 NC_003309.1 + 34561 0.68 0.71021
Target:  5'- cGCAGUgcgccugguacgcgaGCAGCguaGCGAgcacCCGUCGAu -3'
miRNA:   3'- aCGUCG---------------UGUUGaagCGCUa---GGCAGCU- -5'
12155 5' -52.8 NC_003309.1 + 19968 0.69 0.683701
Target:  5'- cUGCuGCGCcugcgCGCGAUCCGcuUCGAc -3'
miRNA:   3'- -ACGuCGUGuugaaGCGCUAGGC--AGCU- -5'
12155 5' -52.8 NC_003309.1 + 3229 0.7 0.604142
Target:  5'- aGgAGCGCAACUuucuUCGCGuuaccagAUCCGcCGAa -3'
miRNA:   3'- aCgUCGUGUUGA----AGCGC-------UAGGCaGCU- -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.