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
28459 3' -55.6 NC_005946.1 + 102889 0.66 0.864956
Target:  5'- uCCAGGAGGgacaGGaggAUGcCCAGGAUGu -3'
miRNA:   3'- -GGUCCUCCga--CCag-UACuGGUCCUAC- -5'
28459 3' -55.6 NC_005946.1 + 101775 0.66 0.864956
Target:  5'- aCUGGGAGGUUcaccaGGUCc---CCAGGAUGu -3'
miRNA:   3'- -GGUCCUCCGA-----CCAGuacuGGUCCUAC- -5'
28459 3' -55.6 NC_005946.1 + 2858 0.66 0.864956
Target:  5'- gCCAGGGGGCUaGUgG-GACCaaaGGGAg- -3'
miRNA:   3'- -GGUCCUCCGAcCAgUaCUGG---UCCUac -5'
28459 3' -55.6 NC_005946.1 + 97125 0.66 0.849063
Target:  5'- cCCGGGcgucguacgaGGGuCUGGUCAcccUGcCCAGGGg- -3'
miRNA:   3'- -GGUCC----------UCC-GACCAGU---ACuGGUCCUac -5'
28459 3' -55.6 NC_005946.1 + 56670 0.66 0.840801
Target:  5'- aCAGGGGGCU-GUCA-GACCugccccugGGGAa- -3'
miRNA:   3'- gGUCCUCCGAcCAGUaCUGG--------UCCUac -5'
28459 3' -55.6 NC_005946.1 + 32256 0.66 0.832339
Target:  5'- -aGGGAGGCcgUGGcCAUGugUGGGcUGg -3'
miRNA:   3'- ggUCCUCCG--ACCaGUACugGUCCuAC- -5'
28459 3' -55.6 NC_005946.1 + 47954 0.66 0.832339
Target:  5'- aCGGGAGGguguacgUGGggaaCGUGGCCuGGAUGc -3'
miRNA:   3'- gGUCCUCCg------ACCa---GUACUGGuCCUAC- -5'
28459 3' -55.6 NC_005946.1 + 36001 0.66 0.832339
Target:  5'- uCCuguuGGcGaGCUGGaCGUGACCGGGGa- -3'
miRNA:   3'- -GGu---CCuC-CGACCaGUACUGGUCCUac -5'
28459 3' -55.6 NC_005946.1 + 80362 0.68 0.768212
Target:  5'- aUCAuGGAG-CUGGUCAUGACCAa---- -3'
miRNA:   3'- -GGU-CCUCcGACCAGUACUGGUccuac -5'
28459 3' -55.6 NC_005946.1 + 92240 0.68 0.748595
Target:  5'- aCAGGAGGUggGGaUCGgcugcggaGGCCAGGAa- -3'
miRNA:   3'- gGUCCUCCGa-CC-AGUa-------CUGGUCCUac -5'
28459 3' -55.6 NC_005946.1 + 89981 0.68 0.738619
Target:  5'- ---cGAGGC-GGUCGUGGCCAuGGAg- -3'
miRNA:   3'- ggucCUCCGaCCAGUACUGGU-CCUac -5'
28459 3' -55.6 NC_005946.1 + 8022 0.68 0.735607
Target:  5'- gCCGGGAGGacccuggcuccgucCUGGcCuGUGGCCGGGGc- -3'
miRNA:   3'- -GGUCCUCC--------------GACCaG-UACUGGUCCUac -5'
28459 3' -55.6 NC_005946.1 + 55917 0.69 0.708145
Target:  5'- cCCAGGuGGGgUGGuUCAUGGCCAuGAa- -3'
miRNA:   3'- -GGUCC-UCCgACC-AGUACUGGUcCUac -5'
28459 3' -55.6 NC_005946.1 + 70243 0.69 0.687472
Target:  5'- gCAGGGGGUUGGggacGACgAGGAUa -3'
miRNA:   3'- gGUCCUCCGACCaguaCUGgUCCUAc -5'
28459 3' -55.6 NC_005946.1 + 91511 0.7 0.656123
Target:  5'- aCCA-GAGGCUGcauaGUCcUGGCCAGGGg- -3'
miRNA:   3'- -GGUcCUCCGAC----CAGuACUGGUCCUac -5'
28459 3' -55.6 NC_005946.1 + 56558 0.72 0.521037
Target:  5'- gUCAGGAGGCaGGccucgCAUGcgccguCCAGGAUGc -3'
miRNA:   3'- -GGUCCUCCGaCCa----GUACu-----GGUCCUAC- -5'
28459 3' -55.6 NC_005946.1 + 95647 0.73 0.456408
Target:  5'- aCCAGGAGggaagccuccucuacGCUGGUCAccGCCGGGGa- -3'
miRNA:   3'- -GGUCCUC---------------CGACCAGUacUGGUCCUac -5'
28459 3' -55.6 NC_005946.1 + 97701 0.76 0.316363
Target:  5'- -aGGGAGGCaggaccggcauccUGGUCAUGACCAgccuccugGGGUGg -3'
miRNA:   3'- ggUCCUCCG-------------ACCAGUACUGGU--------CCUAC- -5'
28459 3' -55.6 NC_005946.1 + 11880 0.76 0.302477
Target:  5'- -gAGGAGGCUGGUgAUuGCCAGGGc- -3'
miRNA:   3'- ggUCCUCCGACCAgUAcUGGUCCUac -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.