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List view: phased small RNA clusters [#Session ID: 1208276707845504]

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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
#968 AACATCAGCCTCTATTT;
AAGCTTCCGAAGCTGTG;
AAGGTTGTCAACCAGAT;
ACATCAGCCTCTATTTT;
AGATCTGGTTGACAACC;
CAGATCTGGTTGACAAC;
CATCAGCCTCTATTTTC;
CTTTCTCCATCTTGTTG;
TATGACTGTGCTGTAGA;
TTAAAGCCAAATCAGGT
7 : 3 1.070e-6 AT1G63080.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23391296-23394481 REVERSE 1 14
#969 AACATCAGCCTCTATTT;
AAGGTTGTCAACCAGAT;
ACATCAGCCTCTATTTT;
AGATCTGGTTGACAACC;
CAGATCTGGTTGACAAC;
CATCAGCCTCTATTTTC;
CTTTCTCCATCTTGTTG;
TATGACTGTGCTGTAGA;
TTAAAGCCAAATCAGGT
6 : 1 1.905e-6 AT1G63080.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23391296-23394481 REVERSE 1 14
#974 AACATCAGCCTCTATTT;
AAGGTTGTCAACCAGAT;
ACATCAGCCTCTATTTT;
AGATCTGGTTGACAACC;
CAGATCTGGTTGACAAC;
CATCAGCCTCTATTTTC;
CTTTCTCCATCTTGTTG;
TATGACTGTGCTGTAGA;
TTAAAGCCAAATCAGGT
6 : 1 1.905e-6 AT1G63080.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23391296-23394481 REVERSE 1 14
#1202 AACAAGCGAATGAGTCA;
ATTCCGGACATCTCCCA;
CGCTATGTTGGACTTAG;
TCATTCCGGACATCTCC;
TGGGAGATGTCCGGAAT;
TTCTAAGTCCAACATAG;
TTCTAAGTCCAACATAG
6 : 1 1.905e-6 AT1G50055.1 | Symbols: TAS1B | TAS1B; other RNA | chr1:18552872-18553710 REVERSE 1 9
#2636 AAACTGACACATGGCTG;
ATAATTTTCTAAGATCC;
ATTTTCTAAGATCCACC;
CGCTATGTTGGACTTAG;
TATTCCAGGATATGCAA;
TTCTAAGTCCAACATAG
5 : 0 7.225e-6 AT2G39675.1 | Symbols: TAS1C | TAS1C; other RNA | chr2:16544366-16545355 REVERSE 2 10
#1008 AACATCAGCCTCTATTT;
AAGCTTCCGAAGCTGTG;
AAGGTTGTCAACCAGAT;
ACATCAGCCTCTATTTT;
AGATCTGGTTGACAACC;
CAGATCTGGTTGACAAC;
CATCAGCCTCTATTTTC;
CTTTCTCCATCTTGTTG;
TTAAAGCCAAATCAGGT
6 : 3 1.653e-5 AT1G63070.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23388989-23390832 REVERSE 1 13
#1619 ATTGTTCGTTTGTCTGT;
CGAACAACTTTTGGTCG;
CGTTTGCCTGTCGCTGG;
CTGGCGACTGAAACCAG;
CTGTAATTGGTCGCTGA;
GCTGAACCAGCGACAGG;
GGCCCTGTTCGTTTGCT;
GGTTTCAGTCGCCAGCG;
GTAATTGGTCGCTGAGT;
GTTTGCCTGTCGCTGGT;
TGCCTGTCGCTGGTTCA
8 : 12 1.918e-5 AT2G25370.1 | Symbols: | zinc finger protein-related | chr2:10813779-10816873 FORWARD 0 5
#1618 ATGTTGTCGCTGGTTGC;
ATTGTTCGTTTGTCTGT;
CGAACAACTTTTGGTCG;
CGCTGGTTGCTGTCGCT;
CGTTTGCCTGTCGCTGG;
CTGGCGACTGAAACCAG;
CTGTAATTGGTCGCTGA;
GCTGAACCAGCGACAGG;
GGTTTCAGTCGCCAGCG;
GTAATTGGTCGCTGAGT;
GTTGTCGCTGGTTGCTG;
GTTTGCCTGTCGCTGGT;
TGCCTGTCGCTGGTTCA;
TGTTGTCGCTGGTTGCT
9 : 19 2.598e-5 AT2G25370.1 | Symbols: | zinc finger protein-related | chr2:10813779-10816873 FORWARD 0 5
#1009 AACATCAGCCTCTATTT;
AAGGTTGTCAACCAGAT;
ACATCAGCCTCTATTTT;
AGATCTGGTTGACAACC;
CAGATCTGGTTGACAAC;
CATCAGCCTCTATTTTC;
CTTTCTCCATCTTGTTG;
TTAAAGCCAAATCAGGT
5 : 1 3.481e-5 AT1G63070.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23388989-23390832 REVERSE 1 13
#1012 AACATCAGCCTCTATTT;
AAGGTTGTCAACCAGAT;
ACATCAGCCTCTATTTT;
AGATCTGGTTGACAACC;
CAGATCTGGTTGACAAC;
CATCAGCCTCTATTTTC;
CTTTCTCCATCTTGTTG;
TTAAAGCCAAATCAGGT
5 : 1 3.481e-5 AT1G63070.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23388989-23390832 REVERSE 1 13
#1212 ATTCCGGACATCTCCCA;
CGCTATGTTGGACTTAG;
TCATTCCGGACATCTCC;
TGGGAGATGTCCGGAAT;
TTCTAAGTCCAACATAG;
TTCTAAGTCCAACATAG
5 : 1 3.481e-5 AT1G50055.1 | Symbols: TAS1B | TAS1B; other RNA | chr1:18552872-18553710 REVERSE 1 9
#3674 GCAGTCTCCTTCGTTGC;
GCAGTCTCCTTCGTTGC;
GCAGTCTCCTTCGTTGC;
GCAGTCTCCTTCGTTGC;
GCCGACGAGGACGGAGG
5 : 1 3.481e-5 AT4G08710.1 | Symbols: | similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G23480.1); similar to PREDICTED: hypothetical protein [Rattus norve (GB:XP_001078517.1); contains InterPro domain Protein of unknown function DUF287; (InterPro:IPR005048) | chr4:5567739-5570569 FORWARD 1 8
#981 AACATCAGCCTCTATTT;
ACATCAGCCTCTATTTT;
AGATCTGGTTGACAACC;
CAGATCTGGTTGACAAC;
CATCAGCCTCTATTTTC;
CTTTCTCCATCTTGTTG;
TATGACTGTGCTGTAGA;
TTAAAGCCAAATCAGGT
5 : 1 3.481e-5 AT1G63080.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23391296-23394481 REVERSE 0 14
#986 AACATCAGCCTCTATTT;
AAGCTTCCGAAGCTGTG;
AAGGTTGTCAACCAGAT;
ACATCAGCCTCTATTTT;
AGATCTGGTTGACAACC;
CAGATCTGGTTGACAAC;
CATCAGCCTCTATTTTC;
CCAAAGTTGTAAATGTG;
TTAAAGCCAAATCAGGT
6 : 4 3.584e-5 AT1G63080.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23391296-23394481 REVERSE 1 14
#1018 AACATCAGCCTCTATTT;
AAGCTTCCGAAGCTGTG;
AAGGTTGTCAACCAGAT;
ACATCAGCCTCTATTTT;
AGATCTGGTTGACAACC;
CAGATCTGGTTGACAAC;
CATCAGCCTCTATTTTC;
CCAAAGTTGTAAATGTG;
TTAAAGCCAAATCAGGT
6 : 4 3.584e-5 AT1G63070.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23388989-23390832 REVERSE 1 13
#1646 ACCAGCGACAGCAACCA;
ATGTTGTCGCTGGTTGC;
ATTGTTCGTTTGTCTGT;
CAGCGACAGCAACCAGC;
CCAGCGACCAGCGACAG;
CGAACAACTTTTGGTCG;
CGCTGGTTGCTGTCGCT;
CTGTAATTGGTCGCTGA;
GACCAGCGACCAGCGAC;
GCTGAACCAGCGACAGG;
GCTGTCGCTGGTCGCTG;
GTAATTGGTCGCTGAGT;
GTTGTCGCTGGTTGCTG;
TGCCTGTCGCTGGTTCA;
TGTTGTCGCTGGTTGCT
10 : 33 0.0001 AT2G25370.1 | Symbols: | zinc finger protein-related | chr2:10813779-10816873 FORWARD 0 5
#4199 AGAGCTTCCTTGAGTCC;
AGCTTCCGACTCATTCA;
AGCTTCCTTGAGTCCAT;
GAGCTCCCTTCAGTCCA;
GAGCTTCCTTGAGTCCA;
TAGCTTCCGACTCATTC;
TTGGACTGAAGGGAGCT
4 : 0 0.0002 AT4G23713.1 | Symbols: MIR319a, MIR319 | MIR319/MIR319a; miRNA | chr4:12352966-12353141 FORWARD 0 5
#4201 AGCTTCCGACTCATTCA;
AGCTTCCTTGAGTCCAT;
GAGCTCCCTTCAGTCCA;
TAGCTTCCGACTCATTC;
TTGGACTGAAGGGAGCT
4 : 0 0.0002 AT4G23713.1 | Symbols: MIR319a, MIR319 | MIR319/MIR319a; miRNA | chr4:12352966-12353141 FORWARD 0 5
#4203 AGCTTCCGACTCATTCA;
AGCTTCCTTGAGTCCAT;
GAGCTCCCTTCAGTCCA;
GAGCTTCCTTGAGTCCA;
TAGCTTCCGACTCATTC;
TTGGACTGAAGGGAGCT
4 : 0 0.0002 AT4G23713.1 | Symbols: MIR319a, MIR319 | MIR319/MIR319a; miRNA | chr4:12352966-12353141 FORWARD 0 5
#1656 CGAACAACTTTTGGTCG;
CGTTTGCCTGTCGCTGG;
CTGGCGACTGAAACCAG;
CTGTAATTGGTCGCTGA;
GCTGAACCAGCGACAGG;
GGCCCTGTTCGTTTGCT;
GGTTTCAGTCGCCAGCG;
GTAATTGGTCGCTGAGT;
GTTTGCCTGTCGCTGGT;
TGCCTGTCGCTGGTTCA
7 : 12 0.0002 AT2G25370.1 | Symbols: | zinc finger protein-related | chr2:10813779-10816873 FORWARD 0 5
#903 AAGGTTGTCAACCAGAT;
ACACCAGGCTCTATTTT;
AGAGCTTCAGAAGCAGT;
AGATCTGGTTGACAACC;
CACCAGGCTCTATTTTC;
CAGATCTGGTTGACAAC;
CCACTGCTTCTGAAGCT;
GAGCTTCAGAAGCAGTG;
TTAGTTGACCGGATGGT
6 : 7 0.0002 AT1G63130.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23416395-23418814 FORWARD 1 21
#913 AAGGTTGTCAACCAGAT;
ACACCAGGCTCTATTTT;
AGAGCTTCAGAAGCAGT;
AGATCTGGTTGACAACC;
CACCAGGCTCTATTTTC;
CAGATCTGGTTGACAAC;
CCACTGCTTCTGAAGCT;
GAGCTTCAGAAGCAGTG;
TTAGTTGACCGGATGGT
6 : 7 0.0002 AT1G63130.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23416395-23418814 FORWARD 1 21
#915 AAGGTTGTCAACCAGAT;
ACACCAGGCTCTATTTT;
AGATCTGGTTGACAACC;
CACCAGGCTCTATTTTC;
CAGATCTGGTTGACAAC;
CCACTGCTTCTGAAGCT;
GAGCTTCAGAAGCAGTG;
TTAGTTGACCGGATGGT
6 : 7 0.0002 AT1G63130.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23416395-23418814 FORWARD 1 21
#1611 ACCAGCGACAGCAACCA;
ATGTTGTCGCTGGTTGC;
ATTGTTCGTTTGTCTGT;
CAGCGACAGCAACCAGC;
CGAACAACTTTTGGTCG;
CGCTGGTTGCTGTCGCT;
CGTTTGCCTGTCGCTGG;
CTGTAATTGGTCGCTGA;
GCTGAACCAGCGACAGG;
GCTGTCGCTGGTCGCTG;
GTAATTGGTCGCTGAGT;
GTTGTCGCTGGTTGCTG;
GTTTGCCTGTCGCTGGT;
TGCCTGTCGCTGGTTCA;
TGTTGTCGCTGGTTGCT
9 : 28 0.0003 AT2G25370.1 | Symbols: | zinc finger protein-related | chr2:10813779-10816873 FORWARD 0 5
#1664 ACGAACAACTTTTGGTC;
ATGTTGTCGCTGGTTGC;
ATTGTTCGTTTGTCTGT;
CGAACAACTTTTGGTCG;
CGACCAAAAGTTGTTCG;
CTGGCGACTGAAACCAG;
GCTGAACCAGCGACAGG;
GTAATTGGTCGCTGAGT;
GTTGTCGCTGGTTGCTG;
TGCCTGTCGCTGGTTCA;
TGTCGCTGGTTGCTGTC;
TGTTGTCGCTGGTTGCT
8 : 21 0.0003 AT2G25370.1 | Symbols: | zinc finger protein-related | chr2:10813779-10816873 FORWARD 0 5
#1675 ACGAACAACTTTTGGTC;
ATGTTGTCGCTGGTTGC;
ATTGTTCGTTTGTCTGT;
CGAACAACTTTTGGTCG;
CGCTGGTTGCTGTCGCT;
CTGGCGACTGAAACCAG;
GCTGAACCAGCGACAGG;
GTAATTGGTCGCTGAGT;
GTTGTCGCTGGTTGCTG;
GTTTGCCTGTCGCTGGT;
TGCCTGTCGCTGGTTCA;
TGTTGTCGCTGGTTGCT
8 : 21 0.0003 AT2G25370.1 | Symbols: | zinc finger protein-related | chr2:10813779-10816873 FORWARD 0 5
#715 AAACATGTGCTTGGCCT;
ATGCTTCTCGACTACTC;
CAAACATGTGCTTGGCC;
GTCGTACAATTTCTCAG;
TCACTGATCAATGGGTT;
TGAGTAGTCGAGAAGCA
5 : 4 0.0004 AT1G62910.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23302722-23306827 FORWARD 0 28
#907 AAACATGTGCTTGGCCT;
ATGCTTCTCGACTACTC;
CAAACATGTGCTTGGCC;
GTCGTACAATTTCTCAG;
TCACTGATCAATGGGTT;
TGAGTAGTCGAGAAGCA
5 : 4 0.0004 AT1G63130.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23416395-23418814 FORWARD 0 21
#773 AAACATGTGCTTGGCCT;
ATGCTTCTCGACTACTC;
CAAACATGTGCTTGGCC;
GTCGTACAATTTCTCAG;
TCACTGATCAATGGGTT;
TGAGTAGTCGAGAAGCA
5 : 4 0.0004 AT1G62930.1 | Symbols: | binding | chr1:23310199-23312348 FORWARD 0 14
#236 AAACATGTGCTTGGCCT;
ATGCTTCTCGACTACTC;
CAAACATGTGCTTGGCC;
GTCGTACAATTTCTCAG;
TCACTGATCAATGGGTT;
TGAGTAGTCGAGAAGCA
5 : 4 0.0004 AT1G63400.1 | Symbols: | pentatricopeptide (PPR) repeat-containing protein | chr1:23510985-23512718 FORWARD 0 11
  Prev Page     Next Page     Page No. 1 / Total 8 Pages , 223 Records



Session Summary        
Users Input
Number of small RNAs submitted by user 24778,   download original FASTA file
Number of valid small RNAs after pre-processing 24778,   download processed FASTA file and LOG file
transcript/genomic library chosen by user Arabidopsis thaliana TAIR7, cDNA, released 04/25/2007
Number of phase-initiators submitted by user 217,   download original FASTA file
Number of valid phase-initiator sequences after pre-processing 166,   download processed FASTA file and LOG file
Mapping small RNAs onto transcript/genomic sequences
Number of total hits during mapping 5682
Number of small RNAs having hits 2719
Number of transcript/genomic sequences having hits 1894
Clustering phased small RNAs
Number of all phased small RNA clusters (having at least 2 phased small RNAs) 1006
Number of transcript/genomic sequences associated with the phased small RNA clusters 221
Identifying cleavage site
Number of phased small RNA clusters with valid cleavage sites directed by phase-initiators 106