miRNA display CGI


Results 1 - 20 of 25 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
23217 3' -57.4 NC_005259.1 + 54725 1.08 0.000863
Target:  5'- uACAGGACAUAGCCGAGGCUGCCGACAg -3'
miRNA:   3'- -UGUCCUGUAUCGGCUCCGACGGCUGU- -5'
23217 3' -57.4 NC_005259.1 + 15144 0.71 0.32792
Target:  5'- uACGGGGCcaccucgGUGGCCGAGGCcgagGCCauccucGACAc -3'
miRNA:   3'- -UGUCCUG-------UAUCGGCUCCGa---CGG------CUGU- -5'
23217 3' -57.4 NC_005259.1 + 24797 0.7 0.387043
Target:  5'- aGCAGGGCcaAGaCCGAGGUgccCCGGCAc -3'
miRNA:   3'- -UGUCCUGuaUC-GGCUCCGac-GGCUGU- -5'
23217 3' -57.4 NC_005259.1 + 68786 0.7 0.404919
Target:  5'- aGCAGGuCGUAcGCCGGGGCggUGUCGGu- -3'
miRNA:   3'- -UGUCCuGUAU-CGGCUCCG--ACGGCUgu -5'
23217 3' -57.4 NC_005259.1 + 60538 0.68 0.491358
Target:  5'- cCGGGACGcAGCCGcucgucGGCaugcccggUGCCGACGg -3'
miRNA:   3'- uGUCCUGUaUCGGCu-----CCG--------ACGGCUGU- -5'
23217 3' -57.4 NC_005259.1 + 52157 0.68 0.50048
Target:  5'- gGCAGG-CAgcGCCGAGGCgcucaUgcagcaggaccgcGCCGACAa -3'
miRNA:   3'- -UGUCCuGUauCGGCUCCG-----A-------------CGGCUGU- -5'
23217 3' -57.4 NC_005259.1 + 12501 0.68 0.51173
Target:  5'- uCAGG-CGUAGCCGcuGGGCcGCuCGGCu -3'
miRNA:   3'- uGUCCuGUAUCGGC--UCCGaCG-GCUGu -5'
23217 3' -57.4 NC_005259.1 + 33651 0.68 0.51173
Target:  5'- uCGGGAaaucAGCCGAGGgUGcCCGGCc -3'
miRNA:   3'- uGUCCUgua-UCGGCUCCgAC-GGCUGu -5'
23217 3' -57.4 NC_005259.1 + 6084 0.68 0.515847
Target:  5'- aACAGGACGcccucaacgccgagaUcGCCGAGGCcgagGCCGcCGc -3'
miRNA:   3'- -UGUCCUGU---------------AuCGGCUCCGa---CGGCuGU- -5'
23217 3' -57.4 NC_005259.1 + 45813 0.68 0.522047
Target:  5'- -uGGGuGCGUAGCCGGGGaugaccaUGCCGuccGCAc -3'
miRNA:   3'- ugUCC-UGUAUCGGCUCCg------ACGGC---UGU- -5'
23217 3' -57.4 NC_005259.1 + 23333 0.67 0.542913
Target:  5'- aGCcGGAUuacaucgGGCuCGAGGCUGCCuGCGa -3'
miRNA:   3'- -UGuCCUGua-----UCG-GCUCCGACGGcUGU- -5'
23217 3' -57.4 NC_005259.1 + 44980 0.67 0.552393
Target:  5'- -gAGGGCcgGugcgacuGCCGAGGCaccGCCGACc -3'
miRNA:   3'- ugUCCUGuaU-------CGGCUCCGa--CGGCUGu -5'
23217 3' -57.4 NC_005259.1 + 5956 0.67 0.571497
Target:  5'- aGCGGGACuucugcgGGCCGAccaccaacuacacgGGCaGCCGAgAa -3'
miRNA:   3'- -UGUCCUGua-----UCGGCU--------------CCGaCGGCUgU- -5'
23217 3' -57.4 NC_005259.1 + 2160 0.67 0.585392
Target:  5'- cCAGcGGCGUcgAGCCGccGGUUGCCGAg- -3'
miRNA:   3'- uGUC-CUGUA--UCGGCu-CCGACGGCUgu -5'
23217 3' -57.4 NC_005259.1 + 28648 0.67 0.585392
Target:  5'- ---cGACAccGCCGAGGCcGCCGuCAa -3'
miRNA:   3'- ugucCUGUauCGGCUCCGaCGGCuGU- -5'
23217 3' -57.4 NC_005259.1 + 58564 0.67 0.585392
Target:  5'- --cGGGCGguugGGCCGGaucgcggcgcGGCUGCCGGg- -3'
miRNA:   3'- uguCCUGUa---UCGGCU----------CCGACGGCUgu -5'
23217 3' -57.4 NC_005259.1 + 63576 0.67 0.596125
Target:  5'- aGCGGGAUAUAcGCCGccuGGCUGUucucguccuccaUGGCGg -3'
miRNA:   3'- -UGUCCUGUAU-CGGCu--CCGACG------------GCUGU- -5'
23217 3' -57.4 NC_005259.1 + 28007 0.67 0.596125
Target:  5'- cCGGGGCGgggucGCCGGGGUUGCgCG-CGu -3'
miRNA:   3'- uGUCCUGUau---CGGCUCCGACG-GCuGU- -5'
23217 3' -57.4 NC_005259.1 + 22791 0.66 0.606887
Target:  5'- uGCAGGuGCuca-CCGAGGgUGCCGAUu -3'
miRNA:   3'- -UGUCC-UGuaucGGCUCCgACGGCUGu -5'
23217 3' -57.4 NC_005259.1 + 50665 0.66 0.606887
Target:  5'- cAUAGGGCAccAGCgCGucGgUGCCGACGa -3'
miRNA:   3'- -UGUCCUGUa-UCG-GCucCgACGGCUGU- -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.