genome.fa.s256.2.7.7.80.10.50.1000.2.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: Scaffold256
Parameters: 2 7 7 80 10 50 1000
Length:  1244454

Tables:   1   2   3   4   5   6   7   8   

This is table  2  of  8  ( 886 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)
225929--225998	28	2.5	27	86	6	104	0	1	14	84	0.70
240382--240510	52	2.5	52	90	0	213	31	17	16	34	1.92
240756--240834	39	2.0	39	95	0	140	16	31	25	26	1.96
241433--241718	157	1.8	158	86	5	418	36	9	12	41	1.75
244365--244588	72	3.1	71	83	8	251	35	16	21	25	1.94
244363--244693	74	4.6	73	79	9	288	37	14	21	26	1.92
244488--244697	75	2.8	75	81	3	210	39	13	21	25	1.90
246512--246553	11	3.8	11	87	9	59	21	0	2	76	0.90
249360--249407	24	2.0	24	91	4	78	39	0	12	47	1.41
250671--250792	43	2.9	42	75	8	122	43	12	25	18	1.85
250656--250792	42	3.3	42	73	10	118	44	10	25	18	1.83
250834--250929	43	2.2	43	81	1	102	43	20	19	15	1.87
250931--251048	46	2.5	46	83	4	139	42	8	26	22	1.82
251596--251723	61	2.1	61	86	0	175	36	11	27	24	1.90
251796--251916	49	2.4	50	78	8	129	31	15	28	23	1.96
251921--251989	32	2.2	32	86	2	95	23	21	24	30	1.99
251984--252453	27	17.2	27	80	4	455	27	16	34	21	1.95
251986--252452	137	3.4	134	80	5	494	27	16	34	21	1.95
252406--252496	28	3.3	27	80	10	103	25	14	29	30	1.95
253947--253997	7	7.4	7	91	4	86	0	0	13	86	0.58
253947--253997	20	2.5	21	90	6	86	0	0	13	86	0.58
253947--254007	27	2.2	28	91	2	97	0	1	14	83	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
253947--254007	14	4.5	13	87	8	77	0	1	14	83	0.72
264300--264333	14	2.4	14	90	0	50	26	5	32	35	1.81
269069--269572	49	10.2	49	81	7	556	31	18	25	23	1.97
269082--269572	151	3.3	148	89	2	731	32	18	25	23	1.97
269069--269572	101	5.1	98	82	7	549	31	18	25	23	1.97
269436--269572	43	3.1	43	81	10	166	31	19	25	23	1.98
269650--269990	30	10.3	33	81	9	252	36	11	31	21	1.89
269650--269892	101	2.4	101	82	5	283	38	10	31	20	1.86
269650--269927	68	4.1	67	80	10	275	37	10	30	20	1.87
269666--269935	34	7.9	34	81	11	209	38	10	30	20	1.87
269666--269897	33	6.7	35	84	6	205	37	10	30	21	1.87
277807--277870	19	3.7	19	74	23	77	37	18	10	32	1.86
277799--277869	32	2.2	32	97	0	133	36	19	11	32	1.87
277826--277850	13	1.9	13	100	0	50	32	16	16	36	1.90
279593--279647	20	2.8	20	88	5	76	38	12	14	34	1.84
279672--279697	13	2.0	13	100	0	52	30	15	15	38	1.88
285436--285516	13	5.5	13	71	25	63	34	18	14	32	1.91
285431--285518	32	2.8	31	89	5	133	35	17	15	31	1.91
286406--286431	13	2.0	13	100	0	52	38	15	15	30	1.88
290494--290524	15	2.1	15	93	0	53	48	16	22	12	1.80
292602--292640	13	3.0	13	100	0	78	30	15	15	38	1.88
295033--295085	20	2.6	20	84	3	61	39	11	18	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
295124--295149	13	2.0	13	100	0	52	38	15	15	30	1.88
296117--296449	52	6.5	50	80	6	330	34	17	25	23	1.96
296158--296449	101	2.9	101	91	1	469	33	17	25	23	1.96
297452--297500	12	4.1	12	86	7	73	0	0	12	87	0.54
297452--297512	23	2.7	23	89	0	86	0	0	16	83	0.64
297452--297513	11	5.4	12	86	9	58	0	0	17	82	0.67
303943--304008	20	3.7	20	73	26	83	39	12	18	30	1.87
303963--304020	13	4.9	13	68	23	56	37	13	17	31	1.89
303942--304020	33	2.4	33	100	0	158	39	12	17	30	1.87
304061--304129	13	4.8	13	74	19	66	33	18	13	34	1.90
304884--304913	10	3.0	10	95	0	51	13	10	0	76	1.01
308163--308795	165	3.9	165	80	10	660	30	11	7	50	1.65
309402--309469	22	3.1	21	72	19	59	72	1	22	4	1.11
314995--315047	20	2.6	21	79	11	65	39	11	15	33	1.83
315104--315199	51	1.9	50	84	2	129	31	12	10	45	1.76
317060--317113	19	2.8	20	85	2	74	38	12	16	31	1.87
325873--325925	19	2.7	20	88	2	81	37	15	16	30	1.90
326924--326961	5	7.4	5	88	5	58	18	2	0	78	0.86
326921--326961	21	2.0	21	90	0	64	21	2	0	75	0.92
327785--327830	21	2.1	22	88	11	69	6	13	0	80	0.89
328452--328864	166	2.5	166	82	4	460	46	9	11	32	1.73
328772--328819	20	2.3	21	78	10	53	66	4	8	20	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
328780--328820	20	2.0	20	85	0	55	60	4	12	21	1.50
329817--329866	21	2.4	21	93	0	82	28	18	28	26	1.98
331379--332046	80	8.3	80	78	4	578	33	10	27	29	1.89
331390--332014	240	2.6	239	82	6	724	33	10	27	28	1.90
335335--335396	32	1.9	33	83	3	81	40	11	16	32	1.83
336799--336857	28	2.1	28	100	0	118	28	11	23	35	1.91
342641--342674	3	11.3	3	87	0	50	29	29	0	41	1.57
343812--343856	23	2.0	23	91	8	74	42	20	6	31	1.77
344487--344529	23	2.0	22	90	9	70	37	9	6	46	1.63
344700--344841	64	2.2	64	84	1	187	36	11	15	35	1.84
347292--347413	51	2.4	52	87	4	176	33	24	10	31	1.89
347292--347413	52	2.4	51	87	4	174	33	24	10	31	1.89
347400--347470	28	2.6	27	82	13	83	25	33	18	22	1.96
347428--347678	79	3.2	77	79	8	276	26	26	14	32	1.94
347422--347644	76	2.9	76	84	3	277	26	24	13	34	1.93
347610--347721	51	2.2	51	83	3	136	28	26	13	31	1.94
353024--353098	9	8.9	8	75	20	55	84	8	5	2	0.87
353033--353101	13	5.8	13	77	17	62	84	8	5	1	0.84
353033--353101	25	2.7	25	82	14	79	84	8	5	1	0.84
353035--353101	26	2.7	24	80	19	75	83	8	5	1	0.86
353041--353099	15	3.9	15	78	10	57	84	10	3	1	0.80
353022--353098	40	1.9	40	84	5	102	84	7	5	2	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354438--354518	28	2.9	28	79	1	92	25	29	19	24	1.99
354700--354916	32	6.7	32	84	6	233	31	30	18	18	1.95
354693--354887	64	3.0	64	87	4	257	31	31	17	20	1.95
354730--354916	96	1.9	96	86	4	261	31	31	18	18	1.95
354977--355230	52	4.9	52	83	1	244	24	22	15	37	1.93
354977--355230	104	2.4	104	81	3	280	24	22	15	37	1.93
355187--355313	61	2.1	61	86	0	173	25	25	11	37	1.90
355188--355368	61	3.0	59	77	9	168	24	25	12	37	1.90
361200--361493	148	2.0	148	80	2	329	33	19	19	27	1.96
363055--363105	11	4.5	11	76	14	50	17	3	3	74	1.12
365314--365409	20	4.8	20	80	10	97	33	14	12	39	1.84
367215--367492	79	3.5	78	77	6	267	34	15	23	26	1.94
367427--367543	51	2.3	50	81	7	137	34	13	21	30	1.92
367634--367707	29	2.6	28	85	8	96	28	20	29	21	1.98
367489--367759	108	2.5	107	79	3	292	33	15	22	27	1.95
369084--369456	181	2.0	182	95	1	676	41	12	20	25	1.87
370359--370443	20	4.6	19	75	21	83	41	11	17	29	1.85
370359--370428	33	2.1	33	100	0	140	40	11	18	30	1.86
370378--370408	13	2.4	13	94	0	53	38	12	16	32	1.86
373202--373337	60	2.3	59	81	11	161	39	15	19	25	1.91
373332--374217	45	19.8	43	71	11	373	43	15	21	19	1.88
373728--373972	136	1.8	134	80	3	294	46	15	17	19	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
374020--374184	86	1.9	86	82	0	204	44	14	21	19	1.86
374957--375109	77	2.0	77	84	1	200	47	11	12	28	1.76
375606--375755	44	3.4	44	71	10	135	46	15	16	21	1.83
375531--375768	88	2.7	88	86	1	307	46	14	16	23	1.83
376059--376442	112	3.4	110	83	5	466	37	15	14	32	1.88
377032--377105	27	2.9	24	79	18	71	4	17	2	75	1.07
377064--377104	21	2.0	21	85	0	55	2	19	2	75	1.03
377054--377105	19	2.7	18	76	21	52	1	17	1	78	0.93
378432--378571	52	2.7	52	82	4	149	31	13	12	42	1.82
380865--380915	11	4.5	11	76	14	50	17	3	3	74	1.12

Tables:   1   2   3   4   5   6   7   8