miRNA display CGI


Results 1 - 19 of 19 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
31804 3' -52.4 NC_006938.1 + 18255 0.66 0.911075
Target:  5'- --gGAggGCGUCCaCCAGGaugcCCUUCUu -3'
miRNA:   3'- agaCUuaUGCAGGcGGUCCa---GGAAGG- -5'
31804 3' -52.4 NC_006938.1 + 31418 0.66 0.911075
Target:  5'- cCUGAugccucACcUCCGUCAGGUCCgagaUUCa -3'
miRNA:   3'- aGACUua----UGcAGGCGGUCCAGGa---AGG- -5'
31804 3' -52.4 NC_006938.1 + 4099 0.66 0.90448
Target:  5'- --aGGAUGCGUuucaacUCGuCCAGGUUCUgguaUCCg -3'
miRNA:   3'- agaCUUAUGCA------GGC-GGUCCAGGA----AGG- -5'
31804 3' -52.4 NC_006938.1 + 3210 0.66 0.90448
Target:  5'- -aUGggUGuCcUCCGUCAGGUCCg--- -3'
miRNA:   3'- agACuuAU-GcAGGCGGUCCAGGaagg -5'
31804 3' -52.4 NC_006938.1 + 38703 0.66 0.890477
Target:  5'- aCUGGAcucgGCGUCU-CCAGGccgCCUUCa -3'
miRNA:   3'- aGACUUa---UGCAGGcGGUCCa--GGAAGg -5'
31804 3' -52.4 NC_006938.1 + 19798 0.66 0.883076
Target:  5'- gCUGGuccGgGUCCGgCGGGUCCUg-- -3'
miRNA:   3'- aGACUua-UgCAGGCgGUCCAGGAagg -5'
31804 3' -52.4 NC_006938.1 + 20526 0.66 0.875417
Target:  5'- cCUGGcaGCGUCCGCCcgccAGGcaCCU-CCu -3'
miRNA:   3'- aGACUuaUGCAGGCGG----UCCa-GGAaGG- -5'
31804 3' -52.4 NC_006938.1 + 15449 0.66 0.875417
Target:  5'- --cGAAgaACGUCCGCCAGcG-CCagCCg -3'
miRNA:   3'- agaCUUa-UGCAGGCGGUC-CaGGaaGG- -5'
31804 3' -52.4 NC_006938.1 + 12877 0.67 0.867504
Target:  5'- cCUGGAccagGCGcUCGCCGGGgCCUcUCCc -3'
miRNA:   3'- aGACUUa---UGCaGGCGGUCCaGGA-AGG- -5'
31804 3' -52.4 NC_006938.1 + 42177 0.67 0.850949
Target:  5'- cCUGGAaGgGUCCgaucuGCgAGGUCCUUgCCu -3'
miRNA:   3'- aGACUUaUgCAGG-----CGgUCCAGGAA-GG- -5'
31804 3' -52.4 NC_006938.1 + 3129 0.67 0.84232
Target:  5'- cCUGAcggaggacacccAUcAgGUCCGUCAGGUCCg-CCa -3'
miRNA:   3'- aGACU------------UA-UgCAGGCGGUCCAGGaaGG- -5'
31804 3' -52.4 NC_006938.1 + 31696 0.68 0.824407
Target:  5'- -aUGAAcuucUugGUCCGCUugucagggAGGUCCUggucugucaccUCCa -3'
miRNA:   3'- agACUU----AugCAGGCGG--------UCCAGGA-----------AGG- -5'
31804 3' -52.4 NC_006938.1 + 23344 0.68 0.786221
Target:  5'- cCUGG--ACGUCCGCCucGGUCg--CCg -3'
miRNA:   3'- aGACUuaUGCAGGCGGu-CCAGgaaGG- -5'
31804 3' -52.4 NC_006938.1 + 32965 0.69 0.734952
Target:  5'- aCUGGGgcuCGUCCGCCccGUUCU-CCg -3'
miRNA:   3'- aGACUUau-GCAGGCGGucCAGGAaGG- -5'
31804 3' -52.4 NC_006938.1 + 61154 0.7 0.717929
Target:  5'- gCUGG--GCGUacaucgacggcagcaCCGUCAGGUCCggCCa -3'
miRNA:   3'- aGACUuaUGCA---------------GGCGGUCCAGGaaGG- -5'
31804 3' -52.4 NC_006938.1 + 31294 0.72 0.592988
Target:  5'- aCUGAccg-GUCCGUCAGGUCCaucaggUCCc -3'
miRNA:   3'- aGACUuaugCAGGCGGUCCAGGa-----AGG- -5'
31804 3' -52.4 NC_006938.1 + 52808 0.72 0.592988
Target:  5'- --cGAugACGUCCuCCAGGUCCguggcgUCCu -3'
miRNA:   3'- agaCUuaUGCAGGcGGUCCAGGa-----AGG- -5'
31804 3' -52.4 NC_006938.1 + 3090 0.74 0.49649
Target:  5'- aCUGAccg-GUCCGUCAGGUCCaucaggUCCg -3'
miRNA:   3'- aGACUuaugCAGGCGGUCCAGGa-----AGG- -5'
31804 3' -52.4 NC_006938.1 + 9935 1.14 0.001257
Target:  5'- cUCUGAAUACGUCCGCCAGGUCCUUCCa -3'
miRNA:   3'- -AGACUUAUGCAGGCGGUCCAGGAAGG- -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.