miRNA display CGI


Results 1 - 20 of 130 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
28100 3' -59.7 NC_005887.1 + 410 0.67 0.350026
Target:  5'- cGCGaGCacGCCGGGCAGCuCAgcugcgAGCCg -3'
miRNA:   3'- -CGC-CGcaCGGCUCGUCGcGUa-----UCGGg -5'
28100 3' -59.7 NC_005887.1 + 812 0.66 0.393293
Target:  5'- cGCGuGCGcGCCGAGCGccucGCGgAUcuuGCCg -3'
miRNA:   3'- -CGC-CGCaCGGCUCGU----CGCgUAu--CGGg -5'
28100 3' -59.7 NC_005887.1 + 840 0.67 0.379075
Target:  5'- cGCGGcCGcgaagaaagccaaggUGCCc-GUGGaCGCGUGGCCCg -3'
miRNA:   3'- -CGCC-GC---------------ACGGcuCGUC-GCGUAUCGGG- -5'
28100 3' -59.7 NC_005887.1 + 903 1.14 0.00011
Target:  5'- cGCGGCGUGCCGAGCAGCGCAUAGCCCa -3'
miRNA:   3'- -CGCCGCACGGCUCGUCGCGUAUCGGG- -5'
28100 3' -59.7 NC_005887.1 + 1047 0.71 0.185525
Target:  5'- uGCGGUGUuccuuGCCcGGCGGCaGCAgcgcGCCCg -3'
miRNA:   3'- -CGCCGCA-----CGGcUCGUCG-CGUau--CGGG- -5'
28100 3' -59.7 NC_005887.1 + 1094 0.67 0.358403
Target:  5'- aCGGCGccauugccgacGCCGAGCAgGUGCGUGuGCUUg -3'
miRNA:   3'- cGCCGCa----------CGGCUCGU-CGCGUAU-CGGG- -5'
28100 3' -59.7 NC_005887.1 + 1421 0.76 0.083149
Target:  5'- uCGGCGuUGCCGAacucGguGCGCgcgcgGUAGCCCu -3'
miRNA:   3'- cGCCGC-ACGGCU----CguCGCG-----UAUCGGG- -5'
28100 3' -59.7 NC_005887.1 + 1486 0.69 0.2605
Target:  5'- aCGGCGUGCggcgcuCGcGCGGCGC--GGCCg -3'
miRNA:   3'- cGCCGCACG------GCuCGUCGCGuaUCGGg -5'
28100 3' -59.7 NC_005887.1 + 1958 0.66 0.396901
Target:  5'- uCGGcCGUGCCGGGCAucacgauuuccucgcGCGCGacggcggcacGGCCg -3'
miRNA:   3'- cGCC-GCACGGCUCGU---------------CGCGUa---------UCGGg -5'
28100 3' -59.7 NC_005887.1 + 2194 0.68 0.293148
Target:  5'- cGCGGUGa-UCGGGCAGCGCAaaccgaugggcggcUGGCgCa -3'
miRNA:   3'- -CGCCGCacGGCUCGUCGCGU--------------AUCGgG- -5'
28100 3' -59.7 NC_005887.1 + 2205 0.66 0.420866
Target:  5'- cGCGGCGaGCgCGGcgcGCAGCGC---GCaCCg -3'
miRNA:   3'- -CGCCGCaCG-GCU---CGUCGCGuauCG-GG- -5'
28100 3' -59.7 NC_005887.1 + 2544 0.74 0.109921
Target:  5'- -aGGCGcUGUCGGGCGGCuacugcuuccgccGCAUGGCCg -3'
miRNA:   3'- cgCCGC-ACGGCUCGUCG-------------CGUAUCGGg -5'
28100 3' -59.7 NC_005887.1 + 3526 0.7 0.241251
Target:  5'- cGCaaCGUGCCGAuGCAGCGCcucUGGUUCg -3'
miRNA:   3'- -CGccGCACGGCU-CGUCGCGu--AUCGGG- -5'
28100 3' -59.7 NC_005887.1 + 3608 0.66 0.384366
Target:  5'- cGuuGCGccagGCCGcGCAGCGCuucGGCCg -3'
miRNA:   3'- -CgcCGCa---CGGCuCGUCGCGua-UCGGg -5'
28100 3' -59.7 NC_005887.1 + 4942 0.66 0.420866
Target:  5'- cUGGCGUGCa-GGCAgucgcgaccGCGCAgcGCCa -3'
miRNA:   3'- cGCCGCACGgcUCGU---------CGCGUauCGGg -5'
28100 3' -59.7 NC_005887.1 + 6292 0.75 0.095788
Target:  5'- aCGGCGUGCgCGAGC-GCGUcgAGgCCu -3'
miRNA:   3'- cGCCGCACG-GCUCGuCGCGuaUCgGG- -5'
28100 3' -59.7 NC_005887.1 + 6995 0.69 0.274017
Target:  5'- cGCGuG-GUGCCGGGCgugaAGCuCGUGGCCg -3'
miRNA:   3'- -CGC-CgCACGGCUCG----UCGcGUAUCGGg -5'
28100 3' -59.7 NC_005887.1 + 7603 0.66 0.383481
Target:  5'- aGCGGCGccgGUugaucgaUGGGCGGCGacugcuGCCCg -3'
miRNA:   3'- -CGCCGCa--CG-------GCUCGUCGCguau--CGGG- -5'
28100 3' -59.7 NC_005887.1 + 8225 0.67 0.372963
Target:  5'- uGUGGCGaaaucgaaauccucUGCCGAGCgcucGGCGuCAccGCUCa -3'
miRNA:   3'- -CGCCGC--------------ACGGCUCG----UCGC-GUauCGGG- -5'
28100 3' -59.7 NC_005887.1 + 8336 0.68 0.325738
Target:  5'- cGCGaggcauucGCGUGCCGucuGGCGGC-CGaAGCCUg -3'
miRNA:   3'- -CGC--------CGCACGGC---UCGUCGcGUaUCGGG- -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.