miRNA display CGI


Results 1 - 20 of 23 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
1363 3' -55 NC_001335.1 + 22410 0.65 0.755883
Target:  5'- gUCGAUcAGCUCCCcCUCcgGGGUgauGCCCa -3'
miRNA:   3'- -AGCUAcUUGAGGGuGAG--CUCG---UGGGc -5'
1363 3' -55 NC_001335.1 + 13111 0.65 0.755883
Target:  5'- cUGAUGAGC-CUC-CUCGAcaccgGUGCCCGg -3'
miRNA:   3'- aGCUACUUGaGGGuGAGCU-----CGUGGGC- -5'
1363 3' -55 NC_001335.1 + 48865 0.66 0.745526
Target:  5'- aCGAUGAGCUUgaaCACUUGGuGCcuACCCu -3'
miRNA:   3'- aGCUACUUGAGg--GUGAGCU-CG--UGGGc -5'
1363 3' -55 NC_001335.1 + 29993 0.66 0.745526
Target:  5'- -aGAUGAACUUCgCGaucagcucUUCGAGCgaguGCCCGa -3'
miRNA:   3'- agCUACUUGAGG-GU--------GAGCUCG----UGGGC- -5'
1363 3' -55 NC_001335.1 + 39223 0.66 0.745526
Target:  5'- gUCGcacagGGGCUCCCGCUcacgCGAGaCGCCa- -3'
miRNA:   3'- -AGCua---CUUGAGGGUGA----GCUC-GUGGgc -5'
1363 3' -55 NC_001335.1 + 13478 0.66 0.724479
Target:  5'- aCGGUGGcguCUCCgAa--GAGCGCCCa -3'
miRNA:   3'- aGCUACUu--GAGGgUgagCUCGUGGGc -5'
1363 3' -55 NC_001335.1 + 5053 0.66 0.723416
Target:  5'- gCGGUugccgugGGACUCCCAgUCGA-CGCCuCGg -3'
miRNA:   3'- aGCUA-------CUUGAGGGUgAGCUcGUGG-GC- -5'
1363 3' -55 NC_001335.1 + 10791 0.66 0.703064
Target:  5'- cCGAc-AAC-CCCACUCccgaGAGCACCCc -3'
miRNA:   3'- aGCUacUUGaGGGUGAG----CUCGUGGGc -5'
1363 3' -55 NC_001335.1 + 13141 0.67 0.692248
Target:  5'- gCGGUGGcCUucuugacguuucCCCACUCGAuGCGCCa- -3'
miRNA:   3'- aGCUACUuGA------------GGGUGAGCU-CGUGGgc -5'
1363 3' -55 NC_001335.1 + 22000 0.67 0.659494
Target:  5'- aCGAUGGagaacGCUCUCggccuGCUCGAagaGCACCUGc -3'
miRNA:   3'- aGCUACU-----UGAGGG-----UGAGCU---CGUGGGC- -5'
1363 3' -55 NC_001335.1 + 34008 0.67 0.659494
Target:  5'- cUCGGUGGGCUCgCUucuGCUUGGGCAugUCCu -3'
miRNA:   3'- -AGCUACUUGAG-GG---UGAGCUCGU--GGGc -5'
1363 3' -55 NC_001335.1 + 32241 0.67 0.659494
Target:  5'- cUCGAauccGAugUCCCGCaac-GCACCCGg -3'
miRNA:   3'- -AGCUa---CUugAGGGUGagcuCGUGGGC- -5'
1363 3' -55 NC_001335.1 + 30207 0.68 0.637513
Target:  5'- cUCGAUGAACacgucUCCCAgCUCcaccGGCACCa- -3'
miRNA:   3'- -AGCUACUUG-----AGGGU-GAGc---UCGUGGgc -5'
1363 3' -55 NC_001335.1 + 13663 0.68 0.637513
Target:  5'- gCGAUGucGACUUCCACaCGAuccucaacGCGCCCa -3'
miRNA:   3'- aGCUAC--UUGAGGGUGaGCU--------CGUGGGc -5'
1363 3' -55 NC_001335.1 + 398 0.68 0.634213
Target:  5'- -gGGUGAcucaacugugcaugGCaCUCGCUCGAGUGCCCa -3'
miRNA:   3'- agCUACU--------------UGaGGGUGAGCUCGUGGGc -5'
1363 3' -55 NC_001335.1 + 26166 0.68 0.615513
Target:  5'- cUCGGggccugGAgcccGCUgCCGCUUGAcuGCGCCCGa -3'
miRNA:   3'- -AGCUa-----CU----UGAgGGUGAGCU--CGUGGGC- -5'
1363 3' -55 NC_001335.1 + 20915 0.68 0.582643
Target:  5'- gUCGGUccucGGCUaCCCGgUCGAGCACCa- -3'
miRNA:   3'- -AGCUAc---UUGA-GGGUgAGCUCGUGGgc -5'
1363 3' -55 NC_001335.1 + 44449 0.68 0.582643
Target:  5'- cUCGAUGGAUgggUCgaACUCGAGCACUa- -3'
miRNA:   3'- -AGCUACUUG---AGggUGAGCUCGUGGgc -5'
1363 3' -55 NC_001335.1 + 31992 0.69 0.528784
Target:  5'- aCGGUGAcGCUCCaGCUCGgucAGCACCg- -3'
miRNA:   3'- aGCUACU-UGAGGgUGAGC---UCGUGGgc -5'
1363 3' -55 NC_001335.1 + 31050 0.69 0.524548
Target:  5'- cUCGGUGAGCUUCUugcgguucggccgGCUCGGGCcggucucaggcuugACCUGa -3'
miRNA:   3'- -AGCUACUUGAGGG-------------UGAGCUCG--------------UGGGC- -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.