genome.fa.s4020.2.7.7.80.10.50.1000.2.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: scaffold291
Parameters: 2 7 7 80 10 50 1000
Length:  746122

Tables:   1   2   3   

This is table  2  of  3  ( 336 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)
275048--275080	16	2.1	16	94	0	57	27	0	0	72	0.85
279838--280088	30	8.4	30	76	9	167	37	14	26	21	1.91
279829--280090	89	2.9	89	86	1	355	37	15	26	20	1.92
285640--285667	2	14.0	2	100	0	56	50	0	0	50	1.00
291417--291448	15	2.1	15	94	0	55	15	6	9	68	1.36
294683--294721	19	2.0	21	85	10	55	69	5	10	15	1.34
294882--294939	22	2.6	22	84	7	73	43	17	3	36	1.66
294895--294965	21	3.4	19	84	11	70	40	15	7	36	1.74
294929--294972	21	2.1	21	95	0	79	38	15	9	36	1.80
296109--296232	43	2.9	44	80	9	132	33	27	17	21	1.96
301112--301228	21	5.6	21	73	12	73	53	13	11	20	1.71
301125--301229	42	2.5	43	80	11	110	55	14	10	20	1.68
301307--301419	20	5.4	20	79	7	111	53	16	11	18	1.73
301318--301402	43	2.0	43	86	9	120	56	18	8	16	1.64
301318--301402	22	4.0	22	75	7	86	56	18	8	16	1.64
301328--301419	21	4.4	21	77	11	91	53	17	9	19	1.71
301308--301417	42	2.7	40	82	13	125	54	17	10	17	1.70
302069--302093	3	8.3	3	100	0	50	32	0	0	68	0.90
307965--308002	20	1.9	19	94	5	67	18	21	26	34	1.96
308066--308601	201	2.7	199	88	4	747	36	10	12	40	1.76
309069--309122	18	2.9	19	83	10	67	68	3	1	25	1.16
309082--309234	9	16.0	9	68	17	78	64	3	1	31	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
309187--309235	21	2.5	19	81	15	55	67	2	0	30	1.02
312851--312888	15	2.5	15	91	0	67	52	10	13	23	1.71
315975--316005	5	6.2	5	100	0	62	41	19	19	19	1.90
316599--316658	30	2.0	31	86	3	86	40	0	40	20	1.52
316872--316917	9	5.1	9	94	0	83	30	10	13	45	1.77
318880--318957	22	3.5	23	73	18	65	35	14	19	30	1.91
319294--319343	16	2.9	17	77	20	50	36	0	2	62	1.07
325958--326148	95	2.0	95	87	2	276	39	14	13	33	1.84
328203--328252	24	2.1	24	100	0	100	40	20	4	36	1.71
330863--330921	26	2.3	26	87	0	82	40	11	15	32	1.83
337736--337760	13	1.9	13	100	0	50	48	0	0	52	1.00
344612--344636	13	1.9	13	100	0	50	68	24	0	8	1.16
347192--347244	26	2.0	26	96	0	97	22	22	5	49	1.71
351912--351951	18	2.2	18	90	0	62	45	17	12	25	1.83
351911--351951	12	3.4	12	86	0	55	43	17	12	26	1.84
352713--352799	40	2.2	40	95	0	156	24	6	27	41	1.80
355390--355430	16	2.6	16	84	0	55	58	17	0	24	1.38
362762--362810	20	2.5	20	82	0	53	69	10	14	6	1.35
375945--376690	44	17.5	43	69	13	271	28	20	22	28	1.98
376112--376535	167	2.5	168	84	3	537	29	20	21	27	1.98
376419--376530	45	2.5	45	76	13	124	30	20	25	23	1.98
376284--376690	217	1.9	215	81	6	500	28	20	21	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376541--376736	84	2.3	84	88	0	293	28	21	20	29	1.98
377150--377198	20	2.5	20	82	0	53	69	10	16	4	1.32
380531--380565	15	2.4	14	90	4	52	31	11	31	25	1.91
380532--380565	14	2.3	15	90	5	52	32	11	29	26	1.92
381618--381643	7	3.7	7	100	0	52	26	0	15	57	1.38
382261--382303	18	2.4	18	84	7	52	18	23	6	51	1.70
382543--382602	21	2.8	20	80	5	57	31	46	15	6	1.71
386356--386395	20	2.0	20	95	5	71	32	2	0	65	1.06
386347--386402	20	2.7	21	86	5	69	35	1	0	62	1.06
387980--388251	126	2.2	126	88	2	413	28	19	17	34	1.94
388346--388517	81	2.1	82	92	3	285	37	17	2	42	1.62
388478--388634	43	3.4	43	67	19	127	37	21	0	40	1.58
388428--388721	96	3.1	95	92	3	468	39	18	1	40	1.58
388266--388613	177	2.0	176	92	1	581	38	17	2	41	1.61
389354--389405	27	1.9	27	96	0	95	40	15	23	21	1.91
389899--389948	21	2.2	22	82	10	57	24	14	18	44	1.86
393978--394020	16	2.9	14	87	12	68	55	9	0	34	1.32
393968--394020	23	2.3	23	93	0	88	56	9	0	33	1.32
394033--394065	16	2.1	16	94	0	57	45	6	3	45	1.43
394039--394100	23	2.7	23	82	2	72	48	1	1	48	1.21
399399--399435	15	2.5	15	90	0	56	8	5	56	29	1.51
412767--412875	40	2.8	40	88	4	150	35	22	24	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413598--413925	43	7.7	43	81	7	337	26	17	28	26	1.98
413598--413925	86	3.8	86	85	2	410	26	17	28	26	1.98
413597--413925	129	2.6	126	81	8	378	27	17	28	26	1.98
414551--414615	31	2.1	31	88	0	94	47	12	7	32	1.69
416880--416940	3	21.7	3	83	9	76	67	1	1	29	1.10
419107--419177	31	2.3	31	87	2	99	47	9	7	35	1.64
424081--424274	76	2.6	74	82	10	223	35	11	13	39	1.80
424105--424284	76	2.4	79	85	7	248	34	11	13	41	1.80
424106--424313	76	2.8	76	83	5	199	35	10	13	40	1.79
426140--426227	43	2.0	43	97	0	167	36	7	18	37	1.80
428633--428675	22	2.0	21	86	4	59	32	2	6	58	1.38
429223--429273	25	2.0	25	81	7	59	9	33	0	56	1.32
440660--440697	18	2.0	19	85	10	51	44	18	15	21	1.86
442918--442961	18	2.5	19	78	14	58	45	0	6	47	1.29
443085--443140	23	2.5	22	81	13	62	46	5	0	48	1.25
443853--443888	18	2.0	18	88	0	54	19	0	5	75	1.00
445168--445241	23	3.2	23	94	0	121	36	0	14	48	1.45
445177--445241	13	5.5	13	72	20	70	36	0	15	47	1.46
453197--453256	21	2.9	21	94	0	102	11	20	18	50	1.77
454117--454146	12	2.5	12	94	0	51	30	40	23	6	1.80
454343--454427	42	2.0	42	100	0	170	36	21	7	35	1.81
455343--455685	50	6.7	50	83	4	382	20	29	23	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455343--455674	101	3.2	100	85	4	414	20	30	23	25	1.99
455343--455681	151	2.2	154	89	3	522	20	29	23	25	1.99
460167--460231	16	4.1	16	91	0	112	38	4	32	24	1.76
460385--460764	193	2.0	193	97	0	724	49	4	2	43	1.34
460479--460752	61	4.3	60	66	18	144	48	5	2	43	1.38
460765--460803	20	2.0	20	84	0	51	43	2	12	41	1.56
462569--462630	33	1.9	32	83	3	79	59	11	17	11	1.60
463545--463598	27	2.0	27	88	0	81	38	9	37	14	1.79
466620--467068	50	8.8	50	83	3	515	20	29	22	26	1.99
467167--467198	13	2.5	13	94	0	55	56	12	0	31	1.37
467410--467466	30	1.9	30	82	13	73	29	19	7	43	1.77
469090--469134	22	2.0	22	100	0	90	37	8	0	53	1.32
469275--469414	4	35.0	4	72	18	80	70	0	29	0	0.93
469266--469349	39	2.2	38	86	2	114	66	0	32	1	0.99
469279--469432	35	4.3	33	72	21	107	68	0	30	0	0.94
469313--469421	10	10.6	10	70	20	57	68	0	31	0	0.90
469351--469455	30	3.4	30	71	11	97	66	0	33	0	0.92
469280--469465	58	3.1	55	77	17	160	68	0	30	0	0.93
472666--472692	11	2.5	11	100	0	54	37	7	14	40	1.74
472891--473276	193	2.0	194	99	0	765	21	31	24	22	1.98
475961--476000	11	3.7	11	86	6	64	0	30	0	70	0.88
475963--476001	21	1.9	20	94	5	69	0	30	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476326--476411	44	2.0	44	92	0	145	18	18	29	33	1.95
478800--478907	20	5.5	20	73	11	89	43	12	6	37	1.68
478813--478907	39	2.4	40	77	8	106	43	13	7	35	1.72
479841--479927	20	4.4	20	73	2	77	24	5	18	51	1.67
484634--484666	17	1.9	17	88	11	50	27	0	3	69	1.03
490057--490155	46	2.2	46	94	1	173	50	14	14	21	1.77
490421--490474	15	3.7	15	73	14	58	40	31	5	22	1.77
490420--490478	29	2.0	29	90	0	91	38	35	5	20	1.75
491855--491893	19	2.0	20	90	5	62	53	5	2	38	1.37
500174--500212	11	3.4	11	80	13	51	51	0	2	46	1.14

Tables:   1   2   3