miRNA display CGI


Results 1 - 20 of 28 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
23615 3' -53.9 NC_005261.1 + 135781 0.66 0.958267
Target:  5'- gAGCGCGUgCCGcuGUCGgAGGUGACcgugGGCg -3'
miRNA:   3'- -UUGUGCAgGGC--CAGCaUCUACUG----CUG- -5'
23615 3' -53.9 NC_005261.1 + 98292 0.66 0.958267
Target:  5'- cGGCGCGUCCgCGGccUCGggGGcgGGCGcCg -3'
miRNA:   3'- -UUGUGCAGG-GCC--AGCa-UCuaCUGCuG- -5'
23615 3' -53.9 NC_005261.1 + 32398 0.66 0.958267
Target:  5'- --gGCGUCCCGGagcgCGUGccgccGccGGCGACg -3'
miRNA:   3'- uugUGCAGGGCCa---GCAU-----CuaCUGCUG- -5'
23615 3' -53.9 NC_005261.1 + 23355 0.66 0.957128
Target:  5'- cGCGCGUgUCGGcCGUGacaaacgccgagccGGUGGCGAUg -3'
miRNA:   3'- uUGUGCAgGGCCaGCAU--------------CUACUGCUG- -5'
23615 3' -53.9 NC_005261.1 + 23697 0.66 0.95439
Target:  5'- cGACGCGaggcccgCCCGGUCGgguggcaagcGGGUGGCcGCg -3'
miRNA:   3'- -UUGUGCa------GGGCCAGCa---------UCUACUGcUG- -5'
23615 3' -53.9 NC_005261.1 + 76134 0.66 0.95439
Target:  5'- --gGCG-CCC-GUCGUGGAggucgUGGCGGCg -3'
miRNA:   3'- uugUGCaGGGcCAGCAUCU-----ACUGCUG- -5'
23615 3' -53.9 NC_005261.1 + 80676 0.66 0.95439
Target:  5'- cGCGcCGUCgCGGagccCGUAGAagGGCGACa -3'
miRNA:   3'- uUGU-GCAGgGCCa---GCAUCUa-CUGCUG- -5'
23615 3' -53.9 NC_005261.1 + 128481 0.66 0.950277
Target:  5'- gAGCGCGacaUCCUcGUCGUGGAgcuCGACg -3'
miRNA:   3'- -UUGUGC---AGGGcCAGCAUCUacuGCUG- -5'
23615 3' -53.9 NC_005261.1 + 73963 0.66 0.949852
Target:  5'- gGGCGCG-CCCGGgccgucugccucaUCGUGGAgcUGAaGACg -3'
miRNA:   3'- -UUGUGCaGGGCC-------------AGCAUCU--ACUgCUG- -5'
23615 3' -53.9 NC_005261.1 + 47877 0.66 0.945923
Target:  5'- cGGCAgCGUCCgGGgagCGgcGgcGGCGGCg -3'
miRNA:   3'- -UUGU-GCAGGgCCa--GCauCuaCUGCUG- -5'
23615 3' -53.9 NC_005261.1 + 71388 0.66 0.945923
Target:  5'- -cCGCGaCCCGGUacgCGUGGuaGGCGGCg -3'
miRNA:   3'- uuGUGCaGGGCCA---GCAUCuaCUGCUG- -5'
23615 3' -53.9 NC_005261.1 + 32469 0.66 0.936484
Target:  5'- gGGCACGgacucgggcuUCCCGGggcCGgcGAcGGCGGCa -3'
miRNA:   3'- -UUGUGC----------AGGGCCa--GCauCUaCUGCUG- -5'
23615 3' -53.9 NC_005261.1 + 69297 0.67 0.926057
Target:  5'- cGGCGCGgggCgCCGGUggcggcgggagCGgGGGUGACGGCg -3'
miRNA:   3'- -UUGUGCa--G-GGCCA-----------GCaUCUACUGCUG- -5'
23615 3' -53.9 NC_005261.1 + 56558 0.67 0.926057
Target:  5'- gGGCACGUCCuucucgcaccuCGG-CGgcGAcGACGGCg -3'
miRNA:   3'- -UUGUGCAGG-----------GCCaGCauCUaCUGCUG- -5'
23615 3' -53.9 NC_005261.1 + 87534 0.67 0.92047
Target:  5'- gAACACGUUCgGGUgGUAG-UGGCugGGCg -3'
miRNA:   3'- -UUGUGCAGGgCCAgCAUCuACUG--CUG- -5'
23615 3' -53.9 NC_005261.1 + 102085 0.67 0.914635
Target:  5'- -cCACGUCCgCGGUCG-GGAacagGGcCGACa -3'
miRNA:   3'- uuGUGCAGG-GCCAGCaUCUa---CU-GCUG- -5'
23615 3' -53.9 NC_005261.1 + 57502 0.67 0.911016
Target:  5'- gGGCACGUCCCGG-CGgcGGgccuucuuccacagGcACGGCg -3'
miRNA:   3'- -UUGUGCAGGGCCaGCauCUa-------------C-UGCUG- -5'
23615 3' -53.9 NC_005261.1 + 13072 0.68 0.902228
Target:  5'- gGGCGCGUCcgCCGGccCGUcGGcgGGCGGCg -3'
miRNA:   3'- -UUGUGCAG--GGCCa-GCA-UCuaCUGCUG- -5'
23615 3' -53.9 NC_005261.1 + 104634 0.68 0.888852
Target:  5'- gAGCACcaUCCCGGagG-AGGUGACGAa -3'
miRNA:   3'- -UUGUGc-AGGGCCagCaUCUACUGCUg -5'
23615 3' -53.9 NC_005261.1 + 105852 0.68 0.881809
Target:  5'- -cCGCGUccgCCCGGUCGgcGAUG-CGGu -3'
miRNA:   3'- uuGUGCA---GGGCCAGCauCUACuGCUg -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.