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Links to Entrez and to the Sequence Retrieval System (SRS) provided by the Human Genome Sequencing Center, Baylor College of Medicine:
= Retrieve Entrez links (e.g., Medline abstracts, FASTA-formatted sequence reports).
= Retrieve Entrez links to Related sequences (neighbors).
= Retrieve SRS links (if present).
Repeat sequence:
SW perc perc perc query position in query matching repeat position in repeat score div. del. ins. sequence begin end (left) repeat class/family begin end (left) 229 26.8 0.0 0.0 ECOPGSA 789 844 (112) + tRNA-Lys-AAG tRNA 8 63 (13)Alignments:
229 26.79 0.00 0.00 ECOPGSA 789 844 (112) tRNA-Lys-AAG#tRNA 8 63 (13) ECOPGSA 789 TAGCTCAGTTGGTAGAGCACGACCTTGCCAAGGTCGGGGTCGCGAGTTCG 838 i i vvi vii vv i i i tRNA-Lys-AAG#tR 8 TAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTCAGGGTCGTGGGTTCG 57 ECOPGSA 839 AGTCTC 844 i i tRNA-Lys-AAG#tR 58 AGCCCC 63 Transitions / transversions = 2.00 (10 / 5) Gap_init rate = 0.00 (0 / 56), avg. gap size = 0.00 (0 / 0)Masked Sequence:
>ECOPGSA GATCTTCTGGTCGTTGAAACATTGATGTCTCTGTAGCAACATAGGGGTAA TCTTACTGACAACAGATAGTTACCCGTCATTATGCAATTTAATATCCCTA CGTTGCTTACACTGTTCCGTGTCATCCTTATCCCATTCTTTGTATTGGTC TTTTATCTGCCTGTCACCTGGTCGCCGTTTGCCGCCGCGCTCATTTTCTG CGTCGCGGCGGTGACTGACTGGTTCGATGGTTTTCTGGCACGCCGCTGGA ACCAGAGTACCCGGTTTGGTGCTTTCCTTGACCCTGTGGCAGATAAAGTT CTCGTGGCTATCGCCATGGTGCTGGTAACCGAGCATTATCACAGCTGGTG GGTGACATTACCGGCGGCAACGATGATCGCCCGTGAAATTATTATTTCTG CGCTACGCGAATGGATGGCGGAGTTGGGTAAACGCAGTAGCGTGGCCGTC TCCTGGATTGGGAAAGTGAAAACCACTGCCCAGATGGTGGCGTTGGCATG GCTGCTGTGGCGTCCGAACATTTGGGTTGAGTACGCCGGTATTGCACTTT TCTTTGTGGCTGCGGTACTGACTCTGTGGTCAATGTTGCAATATTTGAGC GCTGCGCGTGCAGATTTGCTTGATCAGTGATCGTTTCGGCGTAATTTTCA GCAAACGATCAAAAGTGGTGAAAAATATCGTTGACTCATCGCGCCAGGTA AGTAGAATGCAACGCATCGAACGGCGGCACTGATTGCCAGACGATAATAA AATCAAGTGATTAACTGATTGCTTGATGAATGCGGGAANNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTTTCC CGCTCCAGTTTAAAAGACATCGGCGTCAAGCGGATGTCTGGCTGAAAGGC CTGAAGAATTTGGCGCGTTAACAAAGCGGTTATGTAGCGGATTGCAAATC CGTCTASummary:
================================================== file name: /repeatmasker/tmp/RM2seq sequences: 1 total length: 956 bp GC level: 49.90 % bases masked 56 bp ( 5.86 %) ================================================== number of length percentage elements* occupied of sequence -------------------------------------------------- SINEs: 0 0 bp 0.00 % ALUs 0 0 bp 0.00 % MIRs 0 0 bp 0.00 % LINEs: 0 0 bp 0.00 % LINE1 0 0 bp 0.00 % LINE2 0 0 bp 0.00 % LTR elements: 0 0 bp 0.00 % MaLRs 0 0 bp 0.00 % Retrov. 0 0 bp 0.00 % MER4_group 0 0 bp 0.00 % DNA elements: 0 0 bp 0.00 % MER1_type 0 0 bp 0.00 % MER2_type 0 0 bp 0.00 % Mariners 0 0 bp 0.00 % Unclassified: 0 0 bp 0.00 % Total interspersed repeats: 0 bp 0.00 % Small RNA: 1 56 bp 5.86 % Satellites: 0 0 bp 0.00 % Simple repeats: 0 0 bp 0.00 % Low complexity: 0 0 bp 0.00 % ================================================== * most repeats fragmented by insertions or deletions have been counted as one element The sequence(s) were assumed to be of primate origin. RepeatMasker version 05/05/99 default ProcessRepeats version 05/05/99 Repbase version 3.04Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Query= ECOPGSA (956 letters)
If you have any problems or questions with the results of this search
please refer to the BLAST FAQsDistribution of 2 Blast Hits on the Query Sequence
Score E Sequences producing significant alignments: (bits) Value gi|3705822|gb|AI100779|AI100779 EST210068 Normalized rat br... 38 3.4 gi|3414285|dbj|AT000751|AT000751 Brassica rapa guard cell c... 38 3.4
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