genome.fa.s28.2.7.7.80.10.50.1000.4.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold28
Parameters: 2 7 7 80 10 50 1000
Length:  2815568

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  4  of  16  ( 1890 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472061--472125	35	1.9	33	84	6	85	44	1	0	53	1.09
479020--479052	17	1.9	17	88	11	50	66	0	0	33	0.92
480233--480262	3	10.0	3	100	0	60	66	0	0	33	0.92
482473--482522	18	2.9	17	77	11	57	42	0	0	58	0.98
482912--482964	15	3.3	15	80	14	61	26	1	1	69	1.09
484230--484279	20	2.4	21	86	6	75	46	6	6	42	1.53
485167--485296	38	3.4	38	80	2	118	28	13	16	42	1.85
486482--486506	13	1.9	13	100	0	50	36	16	16	32	1.90
496251--496332	20	4.4	19	69	14	62	24	1	6	68	1.20
496254--496332	27	2.8	28	80	14	92	25	1	6	67	1.22
499496--499540	21	2.1	21	83	0	54	33	15	11	40	1.83
503963--504078	13	7.5	13	70	29	70	34	18	12	33	1.89
503971--504097	19	7.6	19	70	28	119	34	18	12	34	1.88
503963--504097	32	4.2	32	99	0	261	34	18	12	34	1.89
504157--504275	21	5.7	21	95	0	220	32	16	14	36	1.89
513587--513655	18	3.5	20	73	24	67	65	1	0	33	1.02
513565--513642	23	3.4	23	74	16	65	57	2	3	35	1.30
516473--516531	21	2.8	21	86	0	73	62	1	20	15	1.40
519930--519954	13	1.9	13	100	0	50	32	16	16	36	1.90
519989--520013	10	2.5	10	100	0	50	28	28	0	44	1.55
519991--520097	52	2.1	52	92	0	178	35	18	8	37	1.81
524242--524307	27	2.4	27	82	2	69	34	0	3	62	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524718--524773	28	2.0	28	82	3	69	57	10	1	30	1.43
526628--526653	2	13.0	2	100	0	52	50	0	0	50	1.00
527130--527195	28	2.3	29	89	7	100	56	0	1	42	1.08
527125--527177	16	3.4	17	71	28	55	54	0	0	45	0.99
527721--527746	2	13.0	2	100	0	52	50	0	0	50	1.00
532829--532855	2	13.5	2	100	0	54	48	0	0	51	1.00
533168--533219	19	2.9	19	78	13	58	34	0	0	65	0.93
533165--533221	17	3.3	19	76	18	61	33	0	0	66	0.92
533217--533293	28	2.8	27	75	16	77	48	0	1	50	1.09
533207--533279	28	2.6	30	79	16	84	47	0	0	52	1.00
533310--533369	27	2.3	27	80	13	72	45	0	0	55	0.99
536810--536979	85	2.0	85	100	0	340	36	8	21	34	1.83
541929--541983	20	2.7	21	80	5	67	30	16	12	40	1.86
541929--542002	21	3.6	20	81	7	69	31	17	12	39	1.86
547189--547255	27	2.4	27	85	2	80	25	22	29	22	1.99
547240--547362	51	2.4	51	86	5	167	33	11	23	31	1.90
549710--549735	13	2.0	13	100	0	52	38	15	15	30	1.88
549691--549755	34	1.9	33	90	3	103	44	13	16	24	1.85
549776--549840	19	3.8	18	75	24	77	35	16	12	35	1.87
549797--549853	13	3.9	13	74	24	51	35	15	12	36	1.85
549778--549872	32	3.0	32	93	0	154	35	16	11	35	1.85
549910--549967	21	2.7	22	81	7	75	32	15	15	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550709--551323	55	10.9	55	87	6	672	24	20	28	26	1.99
562686--562710	4	6.2	4	100	0	50	76	0	0	24	0.80
568148--568201	20	2.7	20	79	0	63	44	11	12	31	1.78
568233--568300	33	2.1	32	91	2	109	36	16	14	32	1.89
570902--571362	58	8.0	57	75	6	286	44	16	13	25	1.84
572721--572786	20	3.2	20	72	14	64	37	10	10	40	1.74
572728--572794	21	3.3	21	79	6	66	41	11	10	35	1.76
573365--573507	64	2.2	64	85	2	189	36	7	16	39	1.78
573414--573505	32	2.9	32	70	0	85	38	4	16	41	1.68
573565--574726	578	2.0	579	91	1	1871	34	12	20	32	1.89
574947--575093	64	2.3	64	80	6	156	36	11	17	35	1.86
575046--575227	62	2.9	61	72	6	150	39	13	15	31	1.86
575152--575389	32	7.5	32	66	7	92	39	11	14	34	1.82
577077--577470	166	2.4	165	76	5	402	31	11	9	47	1.71
578923--578958	15	2.5	15	95	4	65	41	8	13	36	1.75
580418--580528	52	2.2	50	79	10	120	33	11	27	27	1.91
580464--580954	79	6.2	80	78	6	428	32	13	26	27	1.94
580461--580988	159	3.3	156	84	5	589	33	13	26	27	1.93
583367--583420	20	2.7	20	88	0	81	44	9	18	27	1.80
583318--583469	70	2.2	70	89	2	225	40	13	17	29	1.87
594927--594983	20	2.9	20	86	5	80	35	17	12	35	1.87
594929--595000	19	3.7	19	90	1	99	38	18	12	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648339--648411	20	3.8	20	76	7	87	32	17	10	38	1.85
654011--654041	15	2.0	16	93	6	55	67	0	12	19	1.22
658144--658179	2	18.0	2	100	0	72	50	0	0	50	1.00
667566--667742	74	2.3	76	85	6	236	37	14	23	24	1.92
667690--667798	56	1.9	56	87	7	159	35	11	26	26	1.90
667742--667914	71	2.4	70	75	9	170	41	13	21	23	1.89
679995--680039	22	2.0	23	82	4	56	48	15	17	17	1.81
680393--680433	11	3.5	11	81	12	55	78	0	19	2	0.87
688227--688284	30	1.9	31	89	3	91	24	27	15	32	1.95
688252--688345	46	2.0	46	95	0	170	24	28	10	36	1.89
688304--688604	27	11.0	27	92	1	494	22	34	14	28	1.93
688311--688619	164	1.9	164	94	1	548	22	35	14	27	1.93
688304--688604	137	2.2	137	93	1	516	22	34	14	28	1.93
688587--689381	32	24.8	32	97	0	1432	31	34	18	15	1.93
690222--690266	22	2.0	23	82	4	56	48	15	17	17	1.81
690621--690661	11	3.5	11	81	12	55	78	0	19	2	0.87
702436--702461	13	2.0	13	100	0	52	69	7	7	15	1.35
704874--704935	13	3.6	18	73	26	53	40	14	14	30	1.86
704874--704937	32	2.0	33	93	3	112	40	15	14	29	1.86
708972--709002	15	2.1	15	93	0	53	48	16	22	12	1.80
711081--711119	13	3.0	13	96	0	69	30	17	15	35	1.91
711231--711276	21	2.2	20	81	11	58	32	19	4	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
713664--713727	32	2.0	33	87	3	94	43	15	14	26	1.85
715854--715897	13	3.4	12	82	14	52	2	22	0	75	0.92
716505--716541	19	1.9	19	89	10	58	62	5	10	21	1.48
720786--720834	26	1.9	25	91	4	80	24	14	10	51	1.73
724209--724313	52	2.0	52	92	0	174	31	19	11	38	1.87
726396--726455	21	2.9	21	79	20	72	53	1	25	20	1.55
727455--727480	13	2.0	13	100	0	52	38	15	15	30	1.88
727433--727498	33	2.0	32	91	2	105	30	13	19	36	1.91
727522--727574	20	2.6	20	82	8	63	28	16	16	37	1.91
727562--727586	13	1.9	13	100	0	50	36	16	16	32	1.90
728143--728187	22	2.0	23	95	4	83	35	31	0	33	1.58
729873--729913	22	2.0	21	86	13	59	41	4	21	31	1.74
730258--730283	8	3.2	8	100	0	52	61	23	0	15	1.33
736220--736245	13	2.0	13	100	0	52	38	15	15	30	1.88
736198--736263	33	2.0	32	88	8	98	31	13	18	36	1.90
736287--736339	20	2.6	21	84	3	72	28	16	15	39	1.89
737345--737369	13	1.9	13	100	0	50	32	16	16	36	1.90
737378--737553	52	3.4	52	96	1	318	36	17	17	28	1.93
740957--741003	24	2.0	24	84	12	62	12	2	21	63	1.39
741591--741616	13	2.0	13	100	0	52	38	7	7	46	1.61
743340--743380	20	2.0	20	90	0	64	24	29	7	39	1.82
743449--743495	20	2.3	21	73	23	55	36	12	19	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
744176--744303	20	6.3	20	76	5	96	39	12	11	35	1.80
744269--744322	20	2.7	20	88	8	74	31	18	11	38	1.86
744957--745226	53	5.1	53	76	5	197	34	14	25	24	1.94
744996--745220	106	2.1	106	82	5	267	35	15	24	24	1.94
745399--745651	32	7.7	32	80	5	249	21	18	30	29	1.97
745399--745654	64	3.9	66	77	10	281	22	18	30	28	1.97
747148--747234	37	2.4	37	90	3	131	4	10	5	79	1.04
751046--751100	20	2.7	21	97	2	103	43	10	18	27	1.83
751139--751164	13	2.0	13	100	0	52	38	15	15	30	1.88
753383--753427	21	2.1	21	84	8	56	53	4	20	22	1.63

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16