miRNA display CGI


Results 1 - 20 of 40 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
24832 3' -59.4 NC_005284.1 + 41626 1.07 0.000571
Target:  5'- uGGCGGCACGGACGACGCGAGCGGAAAc -3'
miRNA:   3'- -CCGCCGUGCCUGCUGCGCUCGCCUUU- -5'
24832 3' -59.4 NC_005284.1 + 22076 0.74 0.160696
Target:  5'- uGCGGC-CGGACuGCGCGA-CGGAAAa -3'
miRNA:   3'- cCGCCGuGCCUGcUGCGCUcGCCUUU- -5'
24832 3' -59.4 NC_005284.1 + 54676 0.74 0.160696
Target:  5'- cGCGGCGaaGACGgcGCGCGAGCGGu-- -3'
miRNA:   3'- cCGCCGUgcCUGC--UGCGCUCGCCuuu -5'
24832 3' -59.4 NC_005284.1 + 9213 0.73 0.187757
Target:  5'- aGGCGucgauagccgaguGCGCGGGCGACGCGccacgcGGCGGc-- -3'
miRNA:   3'- -CCGC-------------CGUGCCUGCUGCGC------UCGCCuuu -5'
24832 3' -59.4 NC_005284.1 + 29739 0.72 0.22499
Target:  5'- cGgGGCGCcGAacagcacCGGCGCGAGCGGGAu -3'
miRNA:   3'- cCgCCGUGcCU-------GCUGCGCUCGCCUUu -5'
24832 3' -59.4 NC_005284.1 + 21570 0.72 0.225565
Target:  5'- aGGCcGCGCGGGCguucGACGCGcAGCGGc-- -3'
miRNA:   3'- -CCGcCGUGCCUG----CUGCGC-UCGCCuuu -5'
24832 3' -59.4 NC_005284.1 + 45151 0.72 0.231382
Target:  5'- aGGCGuggucgacGCACGG-CGACGuCGGGCaGGAGAu -3'
miRNA:   3'- -CCGC--------CGUGCCuGCUGC-GCUCG-CCUUU- -5'
24832 3' -59.4 NC_005284.1 + 45652 0.71 0.243394
Target:  5'- uGGCGGCucguCGGugcGCGAgGCG-GUGGAAAu -3'
miRNA:   3'- -CCGCCGu---GCC---UGCUgCGCuCGCCUUU- -5'
24832 3' -59.4 NC_005284.1 + 8642 0.71 0.255921
Target:  5'- uGCGGUGCGcGACGGCGgGcgcacAGCGGAu- -3'
miRNA:   3'- cCGCCGUGC-CUGCUGCgC-----UCGCCUuu -5'
24832 3' -59.4 NC_005284.1 + 51732 0.71 0.261728
Target:  5'- cGCGuGUACGGaaagaucGCGGCGCGccuGCGGGAAg -3'
miRNA:   3'- cCGC-CGUGCC-------UGCUGCGCu--CGCCUUU- -5'
24832 3' -59.4 NC_005284.1 + 47743 0.7 0.273663
Target:  5'- cGGCGGUACGG-CGGCGCGcguacguccgcguaAGCaGAu- -3'
miRNA:   3'- -CCGCCGUGCCuGCUGCGC--------------UCGcCUuu -5'
24832 3' -59.4 NC_005284.1 + 19789 0.7 0.282552
Target:  5'- --gGGCAUGGACGGCaGCGcGGCGGcAGAu -3'
miRNA:   3'- ccgCCGUGCCUGCUG-CGC-UCGCC-UUU- -5'
24832 3' -59.4 NC_005284.1 + 10415 0.7 0.29025
Target:  5'- gGGCGGCcgaugacgcgcaguCGGcauaucggaauuugGCGACGCGGGCGGc-- -3'
miRNA:   3'- -CCGCCGu-------------GCC--------------UGCUGCGCUCGCCuuu -5'
24832 3' -59.4 NC_005284.1 + 26309 0.69 0.326537
Target:  5'- uGCGGCGCG-----UGCGAGCGGAAAg -3'
miRNA:   3'- cCGCCGUGCcugcuGCGCUCGCCUUU- -5'
24832 3' -59.4 NC_005284.1 + 2355 0.69 0.326537
Target:  5'- gGGCGGUAUGGGgucauCGAGCGGAGAg -3'
miRNA:   3'- -CCGCCGUGCCUgcugcGCUCGCCUUU- -5'
24832 3' -59.4 NC_005284.1 + 47784 0.69 0.334343
Target:  5'- aGGCGGCgcucGCGGagGCGACggGCGAGCGc--- -3'
miRNA:   3'- -CCGCCG----UGCC--UGCUG--CGCUCGCcuuu -5'
24832 3' -59.4 NC_005284.1 + 21315 0.69 0.334343
Target:  5'- aGGCGGUucaauGCGGGCGAC-UG-GCGGGGc -3'
miRNA:   3'- -CCGCCG-----UGCCUGCUGcGCuCGCCUUu -5'
24832 3' -59.4 NC_005284.1 + 23326 0.69 0.339889
Target:  5'- cGGCGGCACGGcGgucaauugggggccCGGCGCGccgcAGCGGc-- -3'
miRNA:   3'- -CCGCCGUGCC-U--------------GCUGCGC----UCGCCuuu -5'
24832 3' -59.4 NC_005284.1 + 4393 0.69 0.342286
Target:  5'- aGUGGCACGGcacaACGGuuuCGuCGAGCGGGu- -3'
miRNA:   3'- cCGCCGUGCC----UGCU---GC-GCUCGCCUuu -5'
24832 3' -59.4 NC_005284.1 + 12382 0.68 0.364403
Target:  5'- uGGCGggaGCGCGGGaggaggggauucgcCGGCGCGcaacGGCGGGAu -3'
miRNA:   3'- -CCGC---CGUGCCU--------------GCUGCGC----UCGCCUUu -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.