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List view: phased small RNA clusters [#Session ID: 1208363794202399]

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Cluster ID Phased small RNA(s) # of hit position
[phased:non-phased]
P-value Matched transcript Transcript description # of cleavage sites guided by input phase-initiator # of complementary regions
#180728 AAAGCGTCCTTTAGAAT;
ACTTTCTCTGGTGTCTT;
AGAGAGTGCACTTTCTC;
ATGGTTGCGAAGTCAGG;
CCTTGAGGCGTCTGCTC;
CTTTCTCTGGTGTCTTC;
GAGAGTGCACTTTCTCC;
GGTTGCGAAGTCAGGTG;
TAATCAATTTCGCTCTC;
TCCTTGAGGCGTCTGCT;
TGACCGCTTCATGAACT;
TGAGAGAGTGCACTTTC;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC;
TTGCGAAGTCAGGTGCT;
TTTCTCTGGTGTCTTCC
9 : 5 2.377e-8 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#180727 ACTTTCTCTGGTGTCTT;
ATGGTTGCGAAGTCAGG;
CCTTGAGGCGTCTGCTC;
CTTTCTCTGGTGTCTTC;
GGTTGCGAAGTCAGGTG;
TAATCAATTTCGCTCTC;
TCACGTCCAGTGTTGTT;
TCCTTGAGGCGTCTGCT;
TGACCGCTTCATGAACT;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC;
TTGCGAAGTCAGGTGCT;
TTTCTCTGGTGTCTTCC
8 : 4 1.651e-7 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#180726 AAAGCGTCCTTTAGAAT;
ACTTTCTCTGGTGTCTT;
ATGGTTGCGAAGTCAGG;
CCTTGAGGCGTCTGCTC;
GGTTGCGAAGTCAGGTG;
TAATCAATTTCGCTCTC;
TCACGTCCAGTGTTGTT;
TCCTTGAGGCGTCTGCT;
TGACCGCTTCATGAACT;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC
9 : 8 2.158e-7 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#180741 ATGGTTGCGAAGTCAGG;
CCTTGAGGCGTCTGCTC;
GGTTGCGAAGTCAGGTG;
TAATCAATTTCGCTCTC;
TCACGTCCAGTGTTGTT;
TCCTTGAGGCGTCTGCT;
TGACCGCTTCATGAACT;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC;
TTGCGAAGTCAGGTGCT
7 : 2 3.695e-7 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#180742 AAAGCGTCCTTTAGAAT;
ACTTTCTCTGGTGTCTT;
AGAGAGTGCACTTTCTC;
ATGGTTGCGAAGTCAGG;
CCTTGAGGCGTCTGCTC;
GGTTGCGAAGTCAGGTG;
TAATCAATTTCGCTCTC;
TCCTTGAGGCGTCTGCT;
TGACCGCTTCATGAACT;
TGAGAGAGTGCACTTTC;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC
9 : 9 3.946e-7 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#180737 ATCACGTCCAGTGTTGT;
ATGGTTGCGAAGTCAGG;
CCTTGAGGCGTCTGCTC;
GGTTGCGAAGTCAGGTG;
TAATCAATTTCGCTCTC;
TCACGTCCAGTGTTGTT;
TCCTTGAGGCGTCTGCT;
TGACCGCTTCATGAACT;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC
7 : 4 2.582e-6 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#180715 AGAGATTCTAAAGGGCG;
CACCTGACTTCGCTACC;
CTTGAGGCGCCTGATCT;
GAGACATCGGAGGAAAT;
GCACCTGACTTCGCTAC;
GGGCACTGTTGCTGGCA;
TACAGAGAGTGAAGTTG;
TGACCGCTTCATGAACT;
TTTTTGCCCTTCTTTTT
8 : 9 4.827e-6 LOC_Os12g42380.1|12012.m08017|cDNA expressed protein 0 0
#98527 AAGAGCAGCGGGCTATA;
ACACATTGCGTCTTGGA;
AGTCTGCTATTGTACCT;
ATAGTCTGCTATTGTAC;
ATCTATAGCCCGCTGCT;
ATTGTATGAATTGGCTA;
CAATTCATCTATAGCCA;
CACACATTGCGTCTTGG;
CCAATTCATCTATAGCC;
GTAGCCAGCTGCAGCAC;
GTATGAATTGGCTATTA;
GTCTGCTATTGTACCTG;
TGTGCTGCAGCTGGCTA
8 : 12 1.918e-5 LOC_Os06g44620.2|12006.m31911|cDNA 4-coumarate--CoA ligase 1, putative, expressed 0 3
#98550 AAGAGCAGCGGGCTATA;
ACACATTGCGTCTTGGA;
AGTCTGCTATTGTACCT;
ATCTATAGCCCGCTGCT;
ATTGTATGAATTGGCTA;
CAATTCATCTATAGCCA;
CACACATTGCGTCTTGG;
CCAATTCATCTATAGCC;
GAGAAGAGCAGCGGGCT;
GTAGCCAGCTGCAGCAC;
GTATGAATTGGCTATTA;
GTCTGCTATTGTACCTG;
TGTGCTGCAGCTGGCTA
8 : 12 1.918e-5 LOC_Os06g44620.2|12006.m31911|cDNA 4-coumarate--CoA ligase 1, putative, expressed 0 3
#98519 AAGAGCAGCGGGCTATA;
ACACATTGCGTCTTGGA;
ATCTATAGCCCGCTGCT;
ATTGTATGAATTGGCTA;
CAATTCATCTATAGCCA;
CACACATTGCGTCTTGG;
CCAATTCATCTATAGCC;
GTAGCCAGCTGCAGCAC;
GTATGAATTGGCTATTA;
TGTGCTGCAGCTGGCTA
7 : 8 3.202e-5 LOC_Os06g44620.2|12006.m31911|cDNA 4-coumarate--CoA ligase 1, putative, expressed 0 3
#180725 AGAGATTCTAAAGGGCG;
AGATTCTAAAGGGCGCT;
CACCTGACTTCGCTACC;
GAGACATCGGAGGAAAT;
GCACCTGACTTCGCTAC;
GGGCACTGTTGCTGGCA;
TACAGAGAGTGAAGTTG;
TGACCGCTTCATGAACT;
TTTTTGCCCTTCTTTTT
7 : 8 3.202e-5 LOC_Os12g42380.1|12012.m08017|cDNA expressed protein 0 0
#144112 ATATACCTGCGGTCTGA;
CGGTCAGACCGCAGGTA;
GCCCTGTGAAGGAAACC;
GGGTTTCCTTCACAGGG;
GGTCTGACCGGCTAGTA;
GGTTTCCTTCACAGGGC
5 : 1 3.481e-5 LOC_Os10g10640.1|12010.m04398|cDNA retrotransposon protein, putative, Ty3-gypsy subclass, expressed 0 3
#2818 CCTTGACGGCGAGCGCG;
CGCGCTCGCCGTCAAGG;
CGGTGGAGCGCTGAGAC;
CGTCTCAGCGCTCCACC;
GCCTTGACGGCGAGCGC;
GGTGGAGCGCTGAGACG;
TCTCCGACCAGGACATG
5 : 1 3.481e-5 LOC_Os01g13670.1|12001.m07975|cDNA hypothetical protein 0 1
#47410 AATATTAATGAATCGCT;
AGAAAGTCATTAAGATG;
AGATTTGGAAATATGAC;
AGTAGATGGAGGGAGTA;
ATTCTTCCACACAAGAT;
CAATCTTGTGTGGAAGA
6 : 4 3.584e-5 LOC_Os04g03884.1|12004.m35070|cDNA transposon protein, putative, CACTA, En/Spm sub-class, expressed 0 3
#47422 AATATTAATGAATCGCT;
AGAAAGTCATTAAGATG;
AGATTTGGAAATATGAC;
ATTCTTCCACACAAGAT;
CAATCTTGTGTGGAAGA;
GTGTCAAGATGAAATAT
6 : 4 3.584e-5 LOC_Os04g03884.1|12004.m35070|cDNA transposon protein, putative, CACTA, En/Spm sub-class, expressed 0 3
#145956 AAGCCCTAGGCCGGGAT;
ATAGACTGCCCTCACAG;
ATCCCGGCCTAGGGCTT;
ATTAAGCCCTAGGCCGG;
CGGGAAATTCTTCCCGG;
GAGTTCTTTGGAGATTG;
GGTCTGTGAGGGCAGTC;
TCCAGGCCAAGCACGCT;
TGGTCTGTGAGGGCAGT
7 : 9 5.150e-5 LOC_Os10g15360.1|12010.m04728|cDNA retrotransposon protein, putative, unclassified 0 1
#36708 CACGTTCAACGTTTGAC;
CTACGACTGCACTTATT;
GGTCAAACGTTGAACGT;
GTCACACATAAAGTACT;
TATTTGTGCTCAACGTT;
TCACGTTCAACGTTTGA;
TTTTTTAAATAAGACGG
6 : 5 6.911e-5 LOC_Os03g22050.1|12003.m07608|cDNA CBL-interacting serine/threonine-protein kinase 15, putative, expressed 0 5
#36734 CACGTTCAACGTTTGAC;
CTACGACTGCACTTATT;
GGTCAAACGTTGAACGT;
GTCACACATAAAGTACT;
TATTTGTGCTCAACGTT;
TCACGTTCAACGTTTGA;
TTTTTTAAATAAGACGG
6 : 5 6.911e-5 LOC_Os03g22050.2|12003.m101335|cDNA CBL-interacting serine/threonine-protein kinase 15, putative, expressed 0 5
#36760 CACGTTCAACGTTTGAC;
CTACGACTGCACTTATT;
GGTCAAACGTTGAACGT;
GTCACACATAAAGTACT;
TATTTGTGCTCAACGTT;
TCACGTTCAACGTTTGA;
TTTTTTAAATAAGACGG
6 : 5 6.911e-5 LOC_Os03g22050.3|12003.m101334|cDNA CBL-interacting serine/threonine-protein kinase 15, putative, expressed 0 4
#109925 AACTCTAGTACATTTTG;
CAAAATGTACTAGAGTT;
CTAAATATAACTCCAGG;
GTTGGAGCTGTACCAAA;
GTTTGGTACAGCTCCAA;
TCCACAACTCCACTCCA
6 : 5 6.911e-5 LOC_Os07g30210.2|12007.m07292|cDNA integral membrane protein, putative, expressed 0 2
#154300 AACAGCGTCAAACATTT;
AATTTTGAATAAGACGA;
ACGGTCAAACATTTTAA;
ATTTTTCAAATAAGACG;
TTTAAAATGTTTGACCG
5 : 2 0.0001 LOC_Os11g11060.1|12011.m05299|cDNA ATP binding protein, putative, expressed 0 3
#154332 AACAGCGTCAAACATTT;
AATTTTGAATAAGACGA;
ACGGTCAAACATTTTAA;
ATTTTTCAAATAAGACG;
TTTAAAATGTTTGACCG
5 : 2 0.0001 LOC_Os11g11060.2|12011.m28759|cDNA ATP binding protein, putative, expressed 0 3
#61815 CCACCTAGAGATACCTC;
GAGGTATCTCTAGGTGG;
GGGCATTCATAATGTGA;
GGGCTATAGTACTCTTA;
TGCAAGCTGAGTTTCCT
5 : 2 0.0001 LOC_Os04g35534.1|12004.m101425|cDNA expressed protein 0 0
#180736 ATGGTTGCGAAGTCAGG;
CCTTGAGGCGTCTGCTC;
GGTTGCGAAGTCAGGTG;
TCACGTCCAGTGTTGTT;
TCCTTGAGGCGTCTGCT;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC;
TTGCGAAGTCAGGTGCT
5 : 2 0.0001 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#180745 ATCACGTCCAGTGTTGT;
ATGGTTGCGAAGTCAGG;
CCTTGAGGCGTCTGCTC;
GGTTGCGAAGTCAGGTG;
TCACGTCCAGTGTTGTT;
TCCTTGAGGCGTCTGCT;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC
5 : 2 0.0001 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#180746 ATCACGTCCAGTGTTGT;
ATGGTTGCGAAGTCAGG;
CCTTGAGGCGTCTGCTC;
GGTTGCGAAGTCAGGTG;
TCACGTCCAGTGTTGTT;
TCCTTGAGGCGTCTGCT;
TGCACTGCTTCATGCCT;
TGGGAGTTCATGAAGCG;
TGGTTGCGAAGTCAGGT;
TTGCACTGCTTCATGCC
5 : 2 0.0001 LOC_Os12g42390.1|12012.m08018|cDNA hypothetical protein 0 0
#166060 AATGGTTATCTATAGGC;
AGCCTATAGATAACCAT;
AGCTGCAGCACGGACTC;
ATCTCCAGGTTAGTAGA;
ATTTTTCTACTTGGAAG;
CTATCTACTAACCTGGA;
GAGCCTATAGATAACCA;
GAGTCCGTGCTGCAGCT;
GGAGTCCGTGCTGCAGC;
GGCTACAGATCTATAGC;
GGTTATCTATAGGCTCT;
GTTTTTCTCTATAGACT;
TGGAGTCCGTGCTGCAG;
TTGGAGTCCGTGCTGCA
9 : 25 0.0001 LOC_Os12g04424.1|12012.m04436|cDNA strictosidine synthase 3 precursor, putative, expressed 0 0
#166120 AATGGTTATCTATAGGC;
AGCCTATAGATAACCAT;
AGCTGCAGCACGGACTC;
ATCTCCAGGTTAGTAGA;
ATTTTTCTACTTGGAAG;
CTATCTACTAACCTGGA;
GAGCCTATAGATAACCA;
GAGTCCGTGCTGCAGCT;
GGAGTCCGTGCTGCAGC;
GGCTACAGATCTATAGC;
GGTTATCTATAGGCTCT;
GTTTTTCTCTATAGACT;
TGGAGTCCGTGCTGCAG;
TTGGAGTCCGTGCTGCA
9 : 25 0.0001 LOC_Os12g04424.1|12012.m04436|cDNA strictosidine synthase 3 precursor, putative, expressed 0 0
#124488 AACTCTAGTACATTTTG;
CAAAATGTACTAGAGTT;
CAGGAGGGGTGGAGCTG;
GAGCTCCACCCAACTCC
4 : 0 0.0002 LOC_Os08g25420.1|12008.m06558|cDNA hypothetical protein 0 2
#41538 AAAAGCAGCGGGCTACA;
AGCCAGCTGCAGCACGG;
CCGTGCTGCAGCTGGCT;
CGTGCTGCAGCTGGCTA;
CTTATAGCCTGCTATTG;
GTAGCCAGCTGCAGCAC
4 : 0 0.0002 LOC_Os03g44000.1|12003.m09442|cDNA expressed protein 0 1
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Session Summary        
Users Input
Number of small RNAs submitted by user 52094,   download original FASTA file
Number of valid small RNAs after pre-processing 52094,   download processed FASTA file and LOG file
transcript/genomic library chosen by user Oryza sativa (rice) TIGR genome cDNA OSA1 Release 5(OSA1R5)
Number of phase-initiators submitted by user 275,   download original FASTA file
Number of valid phase-initiator sequences after pre-processing 142,   download processed FASTA file and LOG file
Mapping small RNAs onto transcript/genomic sequences
Number of total hits during mapping 181211
Number of small RNAs having hits 12228
Number of transcript/genomic sequences having hits 24777
Clustering phased small RNAs
Number of all phased small RNA clusters (having at least 2 phased small RNAs) 4906
Number of transcript/genomic sequences associated with the phased small RNA clusters 1356
Identifying cleavage site
Number of phased small RNA clusters with valid cleavage sites directed by phase-initiators 203