miRNA display CGI


Results 1 - 20 of 20 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
28534 5' -58.7 NC_005946.1 + 41697 0.66 0.717418
Target:  5'- uGCCCcugUCCccGGcucccccugagucccACGGGGCCAgucgGACAc -3'
miRNA:   3'- -CGGGa--AGGu-CC---------------UGCCCCGGUa---CUGUc -5'
28534 5' -58.7 NC_005946.1 + 40303 0.66 0.693253
Target:  5'- cGUCCUugUCCcacuGGAC-GGGCUcgGACGGc -3'
miRNA:   3'- -CGGGA--AGGu---CCUGcCCCGGuaCUGUC- -5'
28534 5' -58.7 NC_005946.1 + 3546 0.66 0.693253
Target:  5'- cGUCUUUCCcaagaGGGGCcuGGCCAUGgACAGg -3'
miRNA:   3'- -CGGGAAGG-----UCCUGccCCGGUAC-UGUC- -5'
28534 5' -58.7 NC_005946.1 + 40133 0.66 0.693253
Target:  5'- gGCUC-UCCGGcgggcauaaacaGAgGGGGCC-UGACGGg -3'
miRNA:   3'- -CGGGaAGGUC------------CUgCCCCGGuACUGUC- -5'
28534 5' -58.7 NC_005946.1 + 13225 0.66 0.68309
Target:  5'- aGCCaggUCCuggAGGGCGGGuucCCAcGACAGg -3'
miRNA:   3'- -CGGga-AGG---UCCUGCCCc--GGUaCUGUC- -5'
28534 5' -58.7 NC_005946.1 + 63201 0.66 0.68309
Target:  5'- uGCCCUUgCGuccCGGGGCCAUGcugccCAGg -3'
miRNA:   3'- -CGGGAAgGUccuGCCCCGGUACu----GUC- -5'
28534 5' -58.7 NC_005946.1 + 25886 0.66 0.68309
Target:  5'- gGCCCgUCCucGACGGGGaCC-UGAUg- -3'
miRNA:   3'- -CGGGaAGGucCUGCCCC-GGuACUGuc -5'
28534 5' -58.7 NC_005946.1 + 88144 0.67 0.672884
Target:  5'- gGCCCUgUCCAGGGuggUGGGGaCCAagaGACc- -3'
miRNA:   3'- -CGGGA-AGGUCCU---GCCCC-GGUa--CUGuc -5'
28534 5' -58.7 NC_005946.1 + 31479 0.67 0.671861
Target:  5'- -aCCgUCCAGGACGGuguaccugcccauGGCCAgcuUGGCGu -3'
miRNA:   3'- cgGGaAGGUCCUGCC-------------CCGGU---ACUGUc -5'
28534 5' -58.7 NC_005946.1 + 14994 0.67 0.646212
Target:  5'- aGCCCUcaaaacggUCCgaccccauguuggagGGGGCGGGGUa--GACGGg -3'
miRNA:   3'- -CGGGA--------AGG---------------UCCUGCCCCGguaCUGUC- -5'
28534 5' -58.7 NC_005946.1 + 40708 0.67 0.642099
Target:  5'- uGCuCCcaCCAGGAUGGGuuuCCAUGACu- -3'
miRNA:   3'- -CG-GGaaGGUCCUGCCCc--GGUACUGuc -5'
28534 5' -58.7 NC_005946.1 + 41618 0.67 0.642099
Target:  5'- uCCCcUCCuaccGACGGGGCCGgcggGAcCAGa -3'
miRNA:   3'- cGGGaAGGuc--CUGCCCCGGUa---CU-GUC- -5'
28534 5' -58.7 NC_005946.1 + 24530 0.68 0.611241
Target:  5'- uCCCUcucgCCGGGACGaGGgaccGCCAUGcCGGg -3'
miRNA:   3'- cGGGAa---GGUCCUGC-CC----CGGUACuGUC- -5'
28534 5' -58.7 NC_005946.1 + 72132 0.68 0.590735
Target:  5'- gGCCCUgCC-GGugGuGGCCAucaUGACGGc -3'
miRNA:   3'- -CGGGAaGGuCCugCcCCGGU---ACUGUC- -5'
28534 5' -58.7 NC_005946.1 + 53372 0.68 0.581544
Target:  5'- gGCCCggccaaauguuggaCCAGGGCuaGGgacaaGGCCAUGGCAGc -3'
miRNA:   3'- -CGGGaa------------GGUCCUG--CC-----CCGGUACUGUC- -5'
28534 5' -58.7 NC_005946.1 + 97857 0.69 0.51045
Target:  5'- gGCCUguggCCGGGGCGGGGUUgAUGAgAu -3'
miRNA:   3'- -CGGGaa--GGUCCUGCCCCGG-UACUgUc -5'
28534 5' -58.7 NC_005946.1 + 48924 0.7 0.500709
Target:  5'- cCCCUggUCCAgucGGAUGGaGGCguCAUGACGGg -3'
miRNA:   3'- cGGGA--AGGU---CCUGCC-CCG--GUACUGUC- -5'
28534 5' -58.7 NC_005946.1 + 72718 0.7 0.480529
Target:  5'- gGUCCgcgUCCGuggacguGGACGGGGUCcugugcggcGUGACGGg -3'
miRNA:   3'- -CGGGa--AGGU-------CCUGCCCCGG---------UACUGUC- -5'
28534 5' -58.7 NC_005946.1 + 49428 0.7 0.462618
Target:  5'- gGCCCUggagGGGACGGGGuCCucguaGACGGg -3'
miRNA:   3'- -CGGGAagg-UCCUGCCCC-GGua---CUGUC- -5'
28534 5' -58.7 NC_005946.1 + 71522 0.72 0.366542
Target:  5'- uGCCCUUCgacaAGGACGGGGUgGUGcCc- -3'
miRNA:   3'- -CGGGAAGg---UCCUGCCCCGgUACuGuc -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.