genome.fa.s78.2.7.7.80.10.50.1000.2.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: Scaffold78
Parameters: 2 7 7 80 10 50 1000
Length:  2238306

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

This is table  2  of  15  ( 1751 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)
204319--204344	13	2.0	13	100	0	52	15	15	15	53	1.73
205889--205955	16	4.1	17	72	24	56	44	0	1	53	1.09
205901--205956	17	3.4	17	69	30	50	44	0	1	53	1.11
213410--213533	44	2.8	44	93	0	203	24	17	14	43	1.86
214826--214864	20	2.0	20	89	0	60	48	5	0	46	1.24
215034--215081	21	2.3	21	82	10	55	56	0	2	41	1.11
215070--215107	2	19.0	2	94	0	67	47	0	2	50	1.15
216902--216933	3	10.7	3	100	0	64	68	0	0	31	0.90
217004--217042	19	2.0	20	85	5	53	64	2	2	30	1.21
217027--217080	25	2.2	25	83	6	65	51	3	11	33	1.55
217217--217267	2	25.5	2	100	0	102	50	0	0	49	1.00
218540--218585	12	3.6	12	81	16	56	39	13	2	45	1.55
224632--224680	13	3.8	13	83	0	71	30	6	42	20	1.76
224620--224681	26	2.4	26	81	5	72	37	4	38	19	1.73
224770--224824	27	2.0	27	82	6	67	49	14	5	30	1.66
225715--225749	16	2.2	16	89	0	52	68	0	2	28	1.04
227756--227802	21	2.3	20	81	3	58	51	0	0	48	1.00
231210--231249	20	2.0	20	85	9	55	57	0	2	40	1.12
235454--235489	18	2.1	17	89	5	54	66	0	0	33	0.92
240085--240145	22	2.9	21	81	13	72	57	0	0	42	0.98
240101--240133	14	2.4	14	94	0	57	60	0	0	39	0.97
240193--240225	16	2.0	17	88	5	50	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
240282--240338	17	3.4	16	75	20	53	28	1	1	68	1.09
240869--240910	17	2.5	16	78	21	50	4	26	0	69	1.08
241303--241334	2	16.0	2	100	0	64	50	0	0	50	1.00
241437--241468	17	1.9	17	93	6	57	28	0	0	71	0.86
243545--243613	25	2.6	26	82	13	79	47	1	1	49	1.19
243597--243629	14	2.3	15	89	5	50	57	0	0	42	0.98
243731--243755	10	2.5	10	100	0	50	40	0	20	40	1.52
244180--244239	14	4.2	14	70	19	52	45	0	0	55	0.99
251886--251911	2	13.0	2	100	0	52	50	0	0	50	1.00
253668--253706	20	1.9	19	85	10	51	51	5	0	43	1.24
253887--253913	2	13.5	2	100	0	54	48	0	0	51	1.00
256355--256410	22	2.5	23	97	2	105	62	8	10	17	1.52
257275--257360	20	4.4	19	73	8	75	37	12	12	37	1.82
257275--257382	40	2.8	40	81	2	103	40	12	11	36	1.78
257313--257383	20	3.5	20	74	0	70	42	12	9	35	1.76
257938--259303	28	47.0	28	83	8	1405	22	17	30	28	1.97
257943--259346	115	12.1	115	84	7	1594	22	17	31	28	1.97
259323--259973	55	11.8	54	89	5	937	28	14	34	22	1.94
258397--259972	28	55.2	28	83	6	1076	25	16	32	26	1.96
259323--259973	82	7.8	83	92	2	976	28	14	34	22	1.94
261257--261323	24	2.7	25	78	21	70	5	10	7	76	1.16
261279--261355	37	2.1	36	85	7	102	6	11	9	72	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
267392--267447	22	2.5	23	97	2	105	62	8	10	17	1.52
268341--268414	20	3.7	19	78	3	67	40	12	12	35	1.80
268616--268640	9	2.8	9	100	0	50	48	12	0	40	1.40
268747--268789	22	2.0	20	86	8	59	41	0	2	55	1.12
268761--268796	16	2.3	16	90	4	56	41	0	0	58	0.98
269180--269213	17	2.1	16	88	5	50	52	0	0	47	1.00
269114--269255	68	2.1	68	100	0	284	42	4	7	46	1.50
270075--270104	15	2.0	15	100	0	60	33	20	0	46	1.51
270172--270215	22	2.0	21	86	4	61	31	11	0	56	1.35
271089--271123	18	1.9	18	88	0	52	31	2	2	62	1.24
271314--271351	20	2.0	18	90	10	58	52	10	0	36	1.36
271310--271354	18	2.6	16	80	19	54	60	8	0	31	1.28
271747--271785	19	2.1	19	85	0	51	46	0	0	53	1.00
271983--272054	33	2.2	33	85	7	92	50	1	0	48	1.09
271991--272054	32	2.0	33	87	3	94	51	0	0	48	1.00
271997--272051	17	3.4	16	76	20	60	54	0	0	45	0.99
272005--272084	27	3.0	27	78	14	69	51	2	1	45	1.22
272145--272209	34	1.9	33	84	9	87	43	0	0	56	0.99
272973--272998	11	2.4	11	100	0	52	92	0	7	0	0.39
274825--274856	2	16.0	2	93	0	55	53	0	0	46	1.00
277307--277356	12	4.2	12	84	7	66	62	0	2	36	1.07
277402--277457	10	4.8	11	73	18	51	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
277405--277442	20	1.9	20	94	0	67	60	0	0	39	0.97
277830--277887	25	2.5	24	81	10	66	48	0	0	51	1.00
277829--277888	24	2.5	23	81	7	75	46	0	0	53	1.00
277962--278017	14	3.9	14	75	20	53	55	0	3	41	1.17
278945--279065	42	2.9	41	73	19	99	39	1	0	58	1.08
279049--279107	18	3.2	19	80	20	72	30	1	0	67	1.00
279053--279118	19	3.6	18	82	15	82	31	3	0	65	1.08
281723--281761	19	2.1	19	90	0	60	43	5	10	41	1.61
281851--281890	21	1.9	21	85	10	55	47	0	2	50	1.14
287895--287928	16	2.0	18	88	11	54	38	0	2	58	1.13
287872--287987	47	2.4	47	75	9	112	38	0	3	56	1.22
290143--290274	66	2.0	66	92	2	221	27	19	10	42	1.84
291655--291753	49	2.0	49	100	0	198	42	14	8	35	1.75
294575--294612	13	2.9	13	81	14	51	78	5	13	2	1.02
299313--299361	23	2.1	23	81	7	55	75	2	12	10	1.13
300107--300161	13	3.9	13	75	15	56	41	0	5	52	1.24
300103--300195	29	3.2	29	92	0	141	47	1	5	46	1.32
307715--307764	13	3.9	13	82	12	50	36	0	4	60	1.16
309891--309946	20	2.8	20	83	8	60	37	0	0	62	0.95
309956--314620	311	15.1	310	85	4	5745	43	8	9	37	1.69
309956--314620	934	5.0	927	86	4	6069	43	8	9	37	1.69
318953--319312	50	7.2	50	88	1	497	30	20	18	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
323708--324003	50	5.9	50	87	0	421	31	20	17	30	1.96
326718--326742	13	1.9	13	100	0	50	32	8	16	44	1.76
326699--326762	34	1.9	33	90	3	101	32	14	17	35	1.89
327330--327418	34	2.6	34	74	10	83	33	14	16	34	1.90
335863--335927	8	8.2	8	76	21	66	33	0	1	64	1.03
335858--335920	13	4.8	13	73	23	51	33	0	0	66	0.92
335855--335927	23	3.0	25	77	20	75	34	0	1	64	1.02
335857--335910	15	3.7	15	80	14	60	31	0	0	68	0.90
335853--335920	30	2.3	29	78	14	86	33	0	0	66	0.92
335963--336006	18	2.4	18	81	14	54	36	2	0	61	1.09
335854--335920	15	4.6	15	74	10	50	32	0	0	67	0.91
336420--336476	4	12.4	5	87	9	54	84	1	14	0	0.71
336420--336473	14	4.0	13	76	13	56	85	1	12	0	0.69
337535--337560	13	2.0	13	100	0	52	46	0	0	53	1.00
337730--338008	142	2.0	143	86	2	400	31	21	10	36	1.88
337946--338080	67	2.0	67	89	0	207	32	16	11	40	1.83
338179--338221	23	2.0	21	90	9	68	62	0	0	37	0.95
339146--339174	13	2.2	13	100	0	58	48	6	6	37	1.57
339354--339394	21	2.0	21	85	4	57	39	0	7	53	1.29
339727--339757	2	15.5	2	93	0	53	45	0	0	54	0.99
339956--340002	22	2.1	22	88	7	69	74	0	2	23	0.93
340214--340273	29	2.1	28	84	3	75	46	5	1	46	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
340406--340436	15	2.1	15	93	0	53	38	0	6	54	1.26
340459--340522	19	3.4	18	76	19	69	67	4	1	26	1.19
340459--340541	19	4.6	18	70	21	57	65	3	2	28	1.22
340459--340541	36	2.3	37	87	2	114	65	3	2	28	1.22
341623--341672	19	2.6	19	78	12	66	60	0	2	38	1.09
346541--346611	27	2.6	27	90	0	106	25	9	18	46	1.79
346548--346635	27	3.4	26	85	4	99	23	9	20	46	1.79
346599--346644	24	1.9	24	100	0	92	17	8	23	50	1.74
349162--349207	21	2.1	22	88	4	67	32	19	28	19	1.96
351088--351165	27	2.9	27	83	7	88	26	10	17	44	1.81

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