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
28356 3' -57 NC_005946.1 + 93991 0.66 0.831505
Target:  5'- cGCCCCGgc--CGUccuGACUgaCCUCCUg -3'
miRNA:   3'- -CGGGGCaguuGCGu--CUGAgaGGAGGG- -5'
28356 3' -57 NC_005946.1 + 100961 0.66 0.823009
Target:  5'- gGCaCCCGUCG----AGACUCUUgUCCUg -3'
miRNA:   3'- -CG-GGGCAGUugcgUCUGAGAGgAGGG- -5'
28356 3' -57 NC_005946.1 + 34135 0.66 0.814338
Target:  5'- -aCCUGUCGACggGCAuGACgUCcgUCCUCCUg -3'
miRNA:   3'- cgGGGCAGUUG--CGU-CUG-AG--AGGAGGG- -5'
28356 3' -57 NC_005946.1 + 99353 0.66 0.805499
Target:  5'- uGCUCggUGUCugaGCAGACgaugcgCUCCUCCg -3'
miRNA:   3'- -CGGG--GCAGuugCGUCUGa-----GAGGAGGg -5'
28356 3' -57 NC_005946.1 + 18787 0.66 0.805499
Target:  5'- aCCCCGUCuuuGCuCAGACcCUCUUCg- -3'
miRNA:   3'- cGGGGCAGu--UGcGUCUGaGAGGAGgg -5'
28356 3' -57 NC_005946.1 + 15018 0.66 0.805499
Target:  5'- cCCCCGUCA----AGACUCcUCCgaCCCa -3'
miRNA:   3'- cGGGGCAGUugcgUCUGAG-AGGa-GGG- -5'
28356 3' -57 NC_005946.1 + 72670 0.67 0.784579
Target:  5'- aCCCCGUgGgguucgugagggagGC-CAGGCUCUgUCUCCCc -3'
miRNA:   3'- cGGGGCAgU--------------UGcGUCUGAGA-GGAGGG- -5'
28356 3' -57 NC_005946.1 + 86124 0.67 0.778062
Target:  5'- uCCCUGUCGAgGgcuucCAGcUUCUCCUCCa -3'
miRNA:   3'- cGGGGCAGUUgC-----GUCuGAGAGGAGGg -5'
28356 3' -57 NC_005946.1 + 9817 0.67 0.768639
Target:  5'- cCCCCGUCuaucuccuuGCcCGGcCUCgacCCUCCCa -3'
miRNA:   3'- cGGGGCAGu--------UGcGUCuGAGa--GGAGGG- -5'
28356 3' -57 NC_005946.1 + 74457 0.67 0.759093
Target:  5'- aCCCCGUCGucauCGGGCUCcucguaUCCUgCCCu -3'
miRNA:   3'- cGGGGCAGUugc-GUCUGAG------AGGA-GGG- -5'
28356 3' -57 NC_005946.1 + 60117 0.67 0.739669
Target:  5'- uCCaCCGUCccccaGUAGuCUgUCCUCCCg -3'
miRNA:   3'- cGG-GGCAGuug--CGUCuGAgAGGAGGG- -5'
28356 3' -57 NC_005946.1 + 76721 0.68 0.72981
Target:  5'- gGCCCCGcgGGCGCAGGCggagUCCacgUCCa -3'
miRNA:   3'- -CGGGGCagUUGCGUCUGag--AGGa--GGG- -5'
28356 3' -57 NC_005946.1 + 49553 0.68 0.728819
Target:  5'- cCCCCGUUugcCGCaaagcuccugacGGACUCUugggugcacgaucCCUCCCu -3'
miRNA:   3'- cGGGGCAGuu-GCG------------UCUGAGA-------------GGAGGG- -5'
28356 3' -57 NC_005946.1 + 47686 0.68 0.719865
Target:  5'- aUCCCGUCcagccuGACGCuGACaacCCUCCCc -3'
miRNA:   3'- cGGGGCAG------UUGCGuCUGagaGGAGGG- -5'
28356 3' -57 NC_005946.1 + 94539 0.68 0.713861
Target:  5'- aGCUuuGgagCGACgGCGGugUCaucgucuccuuccccUCCUCCCa -3'
miRNA:   3'- -CGGggCa--GUUG-CGUCugAG---------------AGGAGGG- -5'
28356 3' -57 NC_005946.1 + 38339 0.68 0.709844
Target:  5'- cCCCCGUCAuguUGUGGAUUCcuaUCCCg -3'
miRNA:   3'- cGGGGCAGUu--GCGUCUGAGaggAGGG- -5'
28356 3' -57 NC_005946.1 + 20960 0.68 0.709844
Target:  5'- aGUCauaCGUgGugGCGGAC-CUggCCUCCCa -3'
miRNA:   3'- -CGGg--GCAgUugCGUCUGaGA--GGAGGG- -5'
28356 3' -57 NC_005946.1 + 63610 0.68 0.709844
Target:  5'- aCCUCGUa---GCAGAgcaucCUCUCCUCCa -3'
miRNA:   3'- cGGGGCAguugCGUCU-----GAGAGGAGGg -5'
28356 3' -57 NC_005946.1 + 64993 0.68 0.709844
Target:  5'- gGCgUCGUCAGCcuCAGcCUCUCUaUCCCg -3'
miRNA:   3'- -CGgGGCAGUUGc-GUCuGAGAGG-AGGG- -5'
28356 3' -57 NC_005946.1 + 83191 0.68 0.68961
Target:  5'- gGCCCCG-CAcAgGCAGucCUCUUCgCCCa -3'
miRNA:   3'- -CGGGGCaGU-UgCGUCu-GAGAGGaGGG- -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.