miRNA display CGI


Results 1 - 20 of 27 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
19634 5' -57.8 NC_004686.1 + 27623 0.72 0.268036
Target:  5'- aCGCUGCCgGUCGGGAucaGACGGCg- -3'
miRNA:   3'- aGCGACGG-CGGCCCUuacUUGUCGgu -5'
19634 5' -57.8 NC_004686.1 + 12533 0.66 0.56349
Target:  5'- -gGCUGCCagccaGCCGGuGAccccgGAGCAGaCCGa -3'
miRNA:   3'- agCGACGG-----CGGCC-CUua---CUUGUC-GGU- -5'
19634 5' -57.8 NC_004686.1 + 51662 0.66 0.542181
Target:  5'- gUCGgUGCCGCCGcagcGGAAuggcuUGAACA-CCGc -3'
miRNA:   3'- -AGCgACGGCGGC----CCUU-----ACUUGUcGGU- -5'
19634 5' -57.8 NC_004686.1 + 17904 0.67 0.510748
Target:  5'- gUGUUgaGCUGUCGGGggUGuAugAGCCu -3'
miRNA:   3'- aGCGA--CGGCGGCCCuuAC-UugUCGGu -5'
19634 5' -57.8 NC_004686.1 + 17146 0.67 0.509713
Target:  5'- -gGCUGcCCGCCcucagucGGAGUGGgaagccgcgaugcGCGGCCAa -3'
miRNA:   3'- agCGAC-GGCGGc------CCUUACU-------------UGUCGGU- -5'
19634 5' -57.8 NC_004686.1 + 47647 0.67 0.500437
Target:  5'- cCGgaGCCGCgGGuGuuUGuGCGGCCGa -3'
miRNA:   3'- aGCgaCGGCGgCC-CuuACuUGUCGGU- -5'
19634 5' -57.8 NC_004686.1 + 33138 0.67 0.470083
Target:  5'- gUUGCcuaUGCCGCCGGGGc----UAGCCAc -3'
miRNA:   3'- -AGCG---ACGGCGGCCCUuacuuGUCGGU- -5'
19634 5' -57.8 NC_004686.1 + 2882 0.67 0.470083
Target:  5'- -gGUUGCaggaCGCCGGGGugcGUGAACuGGCCc -3'
miRNA:   3'- agCGACG----GCGGCCCU---UACUUG-UCGGu -5'
19634 5' -57.8 NC_004686.1 + 36318 0.68 0.450376
Target:  5'- -aGCUgGUCGCCGaGGu-UGAGCGGCUg -3'
miRNA:   3'- agCGA-CGGCGGC-CCuuACUUGUCGGu -5'
19634 5' -57.8 NC_004686.1 + 8454 0.69 0.394138
Target:  5'- gUCGUUGCCGCggUGGGAcuuccucgAUGA--GGCCAg -3'
miRNA:   3'- -AGCGACGGCG--GCCCU--------UACUugUCGGU- -5'
19634 5' -57.8 NC_004686.1 + 48531 0.69 0.385216
Target:  5'- aUGUUGCUGCCGaGGGG-GAACAGUgAa -3'
miRNA:   3'- aGCGACGGCGGC-CCUUaCUUGUCGgU- -5'
19634 5' -57.8 NC_004686.1 + 41363 0.69 0.366919
Target:  5'- cUCGCUGCUGCUGcGGAggugaccgaaugaGUGAcccgACuGCCAc -3'
miRNA:   3'- -AGCGACGGCGGC-CCU-------------UACU----UGuCGGU- -5'
19634 5' -57.8 NC_004686.1 + 38837 0.7 0.359263
Target:  5'- aCGCcGCCcgcaagaucuGCUGGGAAUGccccguGCAGCCGc -3'
miRNA:   3'- aGCGaCGG----------CGGCCCUUACu-----UGUCGGU- -5'
19634 5' -57.8 NC_004686.1 + 9477 0.69 0.41609
Target:  5'- aCGCUGCCguguugaccauauccGCUgguGGGAGUGGAUauuuguGGCCAa -3'
miRNA:   3'- aGCGACGG---------------CGG---CCCUUACUUG------UCGGU- -5'
19634 5' -57.8 NC_004686.1 + 4968 0.69 0.394138
Target:  5'- uUCGUgGCUGCCGGGGAucaUGAGUGGUCGc -3'
miRNA:   3'- -AGCGaCGGCGGCCCUU---ACUUGUCGGU- -5'
19634 5' -57.8 NC_004686.1 + 10766 0.69 0.385216
Target:  5'- gUCGUUgGuuGuuGGGGuaugccagaAUGAACAGCCGc -3'
miRNA:   3'- -AGCGA-CggCggCCCU---------UACUUGUCGGU- -5'
19634 5' -57.8 NC_004686.1 + 39640 0.7 0.350888
Target:  5'- aUGC-GCCGCCGGuGGUGGugAGUCGu -3'
miRNA:   3'- aGCGaCGGCGGCCcUUACUugUCGGU- -5'
19634 5' -57.8 NC_004686.1 + 33630 0.71 0.274867
Target:  5'- -gGCUgGCCGCCGGuGAugGUGAggGCGGCUg -3'
miRNA:   3'- agCGA-CGGCGGCC-CU--UACU--UGUCGGu -5'
19634 5' -57.8 NC_004686.1 + 33529 0.75 0.150125
Target:  5'- aCGCUGCCGCCGGuucGAUGAuGCGGgCCu -3'
miRNA:   3'- aGCGACGGCGGCCc--UUACU-UGUC-GGu -5'
19634 5' -57.8 NC_004686.1 + 34024 0.66 0.552805
Target:  5'- cCGUUGCCGCCGGaaaaaccAGUGGcaucgaGGCCGg -3'
miRNA:   3'- aGCGACGGCGGCCc------UUACUug----UCGGU- -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.