genome.fa.s444.2.7.7.80.10.50.1000.3.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: Scaffold444
Parameters: 2 7 7 80 10 50 1000
Length:  554371

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 509 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)
253193--253228	16	2.2	16	100	0	72	30	36	16	16	1.91
257126--257159	8	4.0	8	92	7	50	61	0	0	38	0.96
260748--260782	2	17.5	2	87	0	52	48	5	0	45	1.26
262551--262609	31	2.1	30	84	15	81	45	0	0	54	0.99
263066--263092	4	6.8	4	100	0	54	25	0	0	74	0.83
263452--263497	21	2.2	21	81	14	51	41	0	2	56	1.11
264014--264050	18	2.1	18	94	0	65	37	0	0	62	0.96
264059--264118	25	2.4	26	83	8	72	46	3	0	50	1.18
265002--265046	14	3.2	14	80	0	54	51	0	2	46	1.13
265428--265479	17	3.0	18	75	11	63	51	1	3	42	1.31
265454--265512	24	2.4	24	76	17	59	55	1	0	42	1.09
265475--265530	20	3.2	17	75	20	53	58	1	0	39	1.08
265452--265532	20	4.1	19	71	20	51	59	1	0	39	1.05
265500--265548	25	2.0	24	88	11	73	61	0	2	36	1.08
265500--265558	25	2.5	24	78	8	66	57	1	1	38	1.19
269379--269434	2	28.0	2	100	0	112	50	0	0	50	1.00
272313--272391	36	2.2	35	80	10	88	41	1	0	56	1.07
272343--272389	24	2.0	24	82	0	58	42	2	0	55	1.12
276910--276977	30	2.3	30	85	10	86	51	1	0	47	1.09
276904--276956	28	2.0	26	85	14	72	54	0	0	45	0.99
277179--277226	15	3.1	15	87	3	60	58	0	2	39	1.10
278435--278508	24	2.9	24	76	13	60	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
278579--278626	25	1.9	25	82	0	60	47	0	0	52	1.00
284995--285032	3	12.7	3	100	0	76	31	0	0	68	0.90
287604--287629	13	2.0	13	100	0	52	38	0	0	61	0.96
290721--290772	27	1.9	27	84	7	70	42	0	0	57	0.98
291174--291228	9	6.1	9	89	8	76	36	1	0	61	1.06
291175--291217	22	2.0	21	86	4	59	32	2	0	65	1.06
294253--294277	1	25.0	1	100	0	50	100	0	0	0	0.00
295658--295697	19	2.1	19	100	0	80	20	15	17	47	1.83
300576--300602	11	2.5	11	100	0	54	74	0	0	25	0.83
300684--300763	39	2.0	39	85	7	108	45	3	3	47	1.38
300697--300761	19	3.2	21	68	31	52	43	3	1	52	1.26
302035--302087	22	2.5	22	81	9	65	45	0	0	54	0.99
308044--308089	3	15.3	3	95	0	83	67	2	0	30	1.03
308479--308551	39	1.9	36	81	13	85	39	1	1	57	1.16
308715--308764	15	3.3	15	78	13	57	40	0	0	60	0.97
308698--308759	20	2.9	20	76	21	63	40	0	1	58	1.08
308739--308786	22	2.2	23	81	11	64	45	0	2	52	1.12
308720--308821	52	1.9	53	86	5	145	45	1	2	50	1.28
308720--308841	52	2.3	52	82	8	140	45	1	4	49	1.31
308807--308881	36	2.1	36	82	0	87	44	8	5	42	1.56
309035--309068	14	2.4	14	90	5	50	35	0	2	61	1.11
309896--309928	14	2.3	15	90	10	52	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
310205--310268	32	2.0	32	96	0	119	34	14	15	35	1.88
310306--310418	33	3.2	34	75	14	106	41	0	0	57	1.05
310371--310446	27	2.9	28	83	11	81	40	0	0	59	0.98
310390--310459	27	2.6	28	80	13	76	41	0	0	58	0.98
310508--310555	25	1.9	25	87	8	71	43	0	0	56	0.99
310521--310570	15	3.2	16	78	21	61	48	0	0	52	1.00
311030--311063	2	17.0	2	100	0	68	50	0	0	50	1.00
311051--311099	21	2.3	21	79	13	55	55	2	2	40	1.23
311191--311221	16	1.9	16	93	0	53	29	0	0	70	0.87
311711--311762	16	3.3	16	81	2	52	50	9	7	32	1.64
311837--311926	16	5.6	16	89	2	137	62	1	0	36	1.03
311838--311926	32	2.8	32	96	1	162	61	1	0	37	1.03
311829--311942	32	3.6	31	80	12	133	62	3	0	34	1.12
314879--314922	21	2.0	22	86	4	63	63	4	0	31	1.14
315236--315278	12	3.5	13	81	6	54	32	0	0	67	0.91
323559--323593	12	3.0	12	91	4	54	71	0	0	28	0.86
323857--323919	33	1.9	33	100	0	126	36	0	9	53	1.33
324094--324147	6	9.0	6	76	15	58	62	0	0	37	0.95
324091--324147	11	5.4	11	81	8	64	61	0	0	38	0.96
324092--324147	14	4.0	14	73	17	62	62	0	0	37	0.95
324324--324384	20	2.9	21	72	18	54	59	1	0	39	1.08
324762--324805	20	2.2	20	84	8	54	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
324764--324813	18	2.7	19	78	6	57	50	0	0	50	1.00
324754--324806	18	2.9	18	75	8	54	52	0	0	47	1.00
325873--325898	2	13.0	2	100	0	52	50	0	0	50	1.00
326093--326136	21	2.1	21	87	8	63	36	0	0	63	0.95
328470--328495	3	8.7	3	100	0	52	69	30	0	0	0.89
328696--328726	6	5.2	6	96	0	53	32	12	38	16	1.86
328688--328726	18	2.2	18	85	0	51	30	15	38	15	1.88
330001--330089	24	3.5	24	70	24	58	35	0	0	64	0.94
330007--330084	28	2.6	28	76	15	77	35	0	0	64	0.94
329994--330089	11	9.0	11	70	16	60	35	0	0	64	0.94
330171--330208	10	3.9	10	82	6	51	34	0	0	65	0.93
330164--330201	19	2.0	20	94	5	69	34	0	0	65	0.93
330167--330235	29	2.4	28	78	7	75	40	1	0	57	1.07
330175--330286	27	4.1	27	72	17	79	41	0	0	56	1.11
330185--330269	16	5.4	16	70	19	54	42	1	1	55	1.15
330213--330301	27	3.3	27	71	21	71	44	0	1	53	1.07
330233--330319	32	2.7	31	74	8	77	44	0	1	54	1.07
330629--330737	46	2.3	48	87	9	154	50	5	0	43	1.31
330838--330885	18	2.5	20	86	10	64	37	0	2	60	1.09
331063--331095	10	3.5	10	84	16	52	45	0	0	54	0.99
331063--331100	18	2.1	18	100	0	76	42	0	0	57	0.98
330709--331166	228	2.0	227	94	1	801	39	8	9	42	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
331142--331212	22	3.1	22	70	22	56	42	1	0	56	1.08
331118--331205	37	2.4	38	77	9	92	46	1	1	51	1.15
334223--334322	22	4.7	20	66	21	60	40	0	1	59	1.04
334243--334310	26	2.5	26	77	13	75	42	0	1	55	1.08
334231--334310	29	2.9	29	75	17	80	42	0	1	56	1.07
335332--335363	2	16.0	2	100	0	64	50	0	0	50	1.00
336807--336848	15	2.7	15	85	3	57	61	0	0	38	0.96
336855--336892	15	2.5	15	86	0	58	42	0	0	57	0.98
336864--336898	18	2.0	18	88	5	54	48	0	0	51	1.00
337361--337401	10	4.2	10	81	15	50	58	0	0	41	0.98
337906--337941	6	6.0	6	100	0	72	66	0	0	33	0.92
337888--337969	6	12.0	7	82	16	61	63	0	0	36	0.95
338642--338682	21	1.9	22	85	14	59	39	0	9	51	1.35
340593--340624	14	2.3	14	94	0	55	37	3	3	56	1.31
341713--341757	13	3.5	13	81	6	56	57	0	0	42	0.98
342519--342565	24	2.0	24	95	0	85	27	23	4	44	1.72
343915--343960	3	15.3	3	100	0	92	67	0	0	32	0.91
344413--344474	20	3.0	21	83	9	83	51	0	0	48	1.00
344362--344444	32	2.7	31	73	15	91	49	0	2	48	1.14
344782--344816	5	7.0	5	93	0	61	0	22	0	77	0.78
347184--347227	8	5.2	8	89	10	70	50	0	0	50	1.00
347191--347222	10	3.4	10	91	8	50	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347191--347227	18	2.1	18	100	0	74	51	0	0	48	1.00
347277--347343	22	3.2	22	75	12	61	58	0	0	41	0.98
348898--348946	24	2.1	24	88	3	73	38	0	0	61	0.96
349319--349376	26	2.2	27	84	3	73	55	0	0	44	0.99
349313--349368	14	4.0	14	71	15	53	53	0	0	46	1.00
349350--349399	24	2.0	27	84	11	70	52	4	0	44	1.20
352549--352627	21	3.9	21	73	18	53	43	0	2	54	1.14
352733--352803	29	2.5	30	84	11	87	35	1	0	63	1.03
352733--352903	20	8.8	20	70	16	78	37	0	0	61	1.05
353963--353996	13	2.6	13	95	0	59	38	0	5	55	1.24

Tables:   1   2   3   4   5