genome.fa.s144.2.7.7.80.10.50.1000.3.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: Scaffold144
Parameters: 2 7 7 80 10 50 1000
Length:  3311329

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  3  of  21  ( 2468 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)
204383--204445	26	2.4	26	84	12	76	49	1	0	49	1.10
204388--204450	23	2.6	24	82	7	65	52	1	0	46	1.10
205275--205315	15	2.6	16	85	11	50	53	0	2	43	1.13
205470--205509	18	2.3	17	86	4	53	62	0	2	35	1.09
205485--205537	21	2.5	21	81	6	63	52	0	1	45	1.11
206271--206324	23	2.3	24	81	12	67	24	0	11	64	1.25
208244--208303	15	3.8	16	73	10	52	28	0	0	71	0.86
208268--208315	9	5.4	9	85	9	55	22	0	0	77	0.78
208282--208329	9	4.6	10	85	14	62	29	0	2	68	1.01
208271--208315	19	2.4	19	85	3	65	24	0	0	75	0.80
208282--208329	12	4.5	11	87	10	57	29	0	2	68	1.01
208942--209007	17	3.7	17	73	13	53	57	1	6	34	1.33
208999--209140	74	2.0	71	87	4	203	47	3	7	40	1.49
209828--209855	2	14.0	2	100	0	56	50	0	0	50	1.00
210050--210118	25	2.7	26	84	4	79	36	0	7	56	1.27
210122--210185	15	4.1	16	78	17	73	39	1	0	59	1.07
210225--210265	15	2.6	16	88	3	57	51	0	0	48	1.00
211369--211423	24	2.3	25	75	9	60	49	0	1	49	1.11
212155--212210	17	3.4	16	73	26	55	48	0	0	51	1.00
212148--212223	31	2.7	27	73	23	75	44	0	0	55	0.99
218080--218142	32	1.9	33	93	3	110	53	3	4	38	1.38
218093--218151	17	3.6	17	70	21	54	54	3	3	38	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
218174--218203	11	2.7	11	94	0	51	66	0	0	33	0.92
221607--221681	23	3.4	22	80	12	82	38	2	0	58	1.12
221822--221871	16	3.1	16	83	11	66	52	0	0	48	1.00
226702--226842	48	2.9	48	77	6	124	19	16	36	27	1.93
228700--228737	16	2.4	16	86	0	58	52	2	0	44	1.14
228873--228915	22	2.0	22	100	0	86	41	6	4	46	1.51
228899--228928	15	2.0	15	100	0	60	46	6	6	40	1.56
230241--230341	53	1.9	53	87	4	150	45	4	3	45	1.43
230741--230781	16	2.6	16	84	0	55	43	2	0	53	1.13
231019--231090	10	7.3	10	71	13	51	58	0	2	38	1.13
231019--231061	21	2.1	20	86	4	59	53	0	4	41	1.21
247300--247410	58	1.9	58	86	0	159	29	20	22	27	1.99
260838--260880	20	2.2	20	95	0	77	34	11	32	20	1.89
263609--263639	4	7.8	4	100	0	62	77	0	0	22	0.77
264084--264181	39	2.7	35	73	17	85	57	2	1	39	1.17
264115--264194	39	2.1	39	83	4	99	57	3	0	38	1.17
264119--264229	29	3.8	28	71	22	77	57	1	0	40	1.09
265205--265235	2	15.5	2	100	0	62	48	0	0	51	1.00
272624--272701	20	3.9	19	80	6	84	39	14	11	34	1.82
277656--277712	16	3.6	16	83	2	62	43	1	0	54	1.10
277767--277800	13	2.6	13	90	0	50	32	17	11	38	1.86
293286--293340	16	3.2	16	76	7	56	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
295046--295114	15	4.6	15	73	12	61	47	0	0	52	1.00
295467--295513	20	2.5	18	80	12	58	55	2	2	40	1.24
295718--295746	12	2.3	13	94	5	51	13	0	24	62	1.32
296168--296208	21	1.9	22	85	5	57	70	4	7	17	1.28
296362--296403	16	2.7	16	85	3	50	57	11	2	28	1.47
302800--302841	16	2.6	16	84	3	57	21	26	7	45	1.77
303674--303729	17	3.1	18	82	7	69	51	0	5	42	1.24
304053--304077	13	1.9	13	100	0	50	36	16	16	32	1.90
304033--304098	32	2.0	33	97	2	125	34	12	18	34	1.88
304159--304275	52	2.2	52	93	0	198	36	14	17	31	1.90
304193--304352	80	2.0	80	93	0	275	39	14	14	31	1.86
312463--312496	15	2.3	15	89	0	50	32	2	11	52	1.53
312768--312806	15	2.6	15	83	0	51	33	0	2	64	1.08
317089--317143	25	2.2	26	83	9	69	67	1	0	30	1.01
318324--318407	30	2.8	30	78	7	98	50	0	0	50	1.00
318355--318403	25	2.0	25	84	15	66	51	0	0	48	1.00
318897--318968	18	4.1	18	73	18	62	62	0	2	34	1.10
320191--320221	16	1.9	16	93	0	53	51	0	0	48	1.00
323092--323133	21	2.0	21	85	0	57	42	4	19	33	1.72
328127--328170	21	2.1	21	82	0	52	38	2	15	43	1.60
329546--329603	28	2.1	28	100	0	116	20	13	15	50	1.78
335372--335450	17	4.7	17	72	9	54	37	12	7	41	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
336977--337023	16	2.9	16	81	12	60	27	14	17	40	1.89
337138--337178	22	1.9	22	85	5	57	36	7	9	46	1.65
340305--340337	2	16.5	2	100	0	66	51	0	0	48	1.00
342669--342693	2	12.5	2	100	0	50	52	0	0	48	1.00
343103--343130	6	4.7	6	100	0	56	82	0	0	17	0.68
344993--345209	34	6.4	34	90	0	301	24	7	27	40	1.83
344995--345209	102	2.1	102	91	0	342	25	7	26	40	1.83
345514--345576	19	3.3	19	88	0	81	28	15	19	36	1.92
349635--349853	34	6.5	34	89	0	296	25	7	26	40	1.83
349639--349853	102	2.1	102	90	0	333	25	7	26	40	1.83
350446--350488	22	2.0	22	100	0	86	53	9	0	37	1.33
350773--350802	15	2.0	15	93	0	51	50	0	0	50	1.00
350775--350804	14	2.2	14	94	5	53	46	0	0	53	1.00
352699--352734	19	1.9	18	88	5	54	50	0	0	50	1.00
352701--352740	16	2.3	18	87	8	57	55	0	0	45	0.99
354360--354400	22	1.9	22	85	14	59	51	0	0	48	1.00
354467--354502	15	2.4	16	82	17	51	38	5	0	55	1.23
360894--360919	8	3.2	8	100	0	52	11	11	26	50	1.73
361525--361649	52	2.4	52	95	0	223	28	17	18	36	1.94
361525--361669	52	2.8	51	89	4	211	29	17	18	34	1.94
361658--361682	13	1.9	13	100	0	50	36	16	16	32	1.90
361746--361770	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
361724--361790	33	2.0	33	88	0	98	40	13	11	34	1.81
363351--363386	16	2.2	17	90	5	56	19	0	8	72	1.10
364216--364250	18	1.9	18	88	0	52	20	8	17	54	1.68
365845--365877	16	2.1	16	88	11	50	69	6	0	24	1.10
366676--366778	16	5.9	16	72	21	64	36	1	0	61	1.07
368031--368069	20	1.9	20	89	5	60	56	0	0	43	0.99
368452--368484	14	2.4	14	90	10	50	45	3	0	51	1.16
369092--369131	15	2.8	15	88	7	57	47	0	0	52	1.00
369513--369551	19	2.1	19	85	9	53	53	10	0	35	1.35
370514--370562	20	2.5	20	80	6	64	48	0	0	51	1.00
371029--371070	14	2.9	15	80	16	52	45	0	2	52	1.13
376753--376792	2	20.0	2	100	0	80	50	0	0	50	1.00
377295--377327	13	2.5	13	90	0	57	48	0	0	51	1.00
378995--379028	5	6.8	5	100	0	68	41	17	20	20	1.91
379397--379441	23	2.0	23	83	12	58	40	0	2	57	1.11
380888--380917	16	1.9	15	93	6	51	53	0	10	36	1.35
381819--381861	8	5.6	8	86	5	54	72	0	11	16	1.13
381821--381864	22	2.0	21	86	4	61	72	0	11	15	1.11
383270--383337	18	3.7	17	71	21	57	38	1	0	60	1.06
383369--383399	15	2.1	15	93	0	53	70	0	0	29	0.87
384730--384794	29	2.2	29	86	0	94	49	0	1	49	1.10
388029--388063	10	3.6	10	84	7	54	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388000--388068	19	3.6	19	82	5	86	34	1	1	62	1.13
388054--388129	37	2.1	36	81	11	86	44	1	1	52	1.17
388728--388779	18	2.9	18	83	8	61	59	0	1	38	1.08
393205--393254	25	2.0	26	84	4	66	60	0	0	40	0.97
396387--396431	18	2.6	18	78	3	56	68	0	0	31	0.89
396398--396443	11	4.6	10	76	17	51	73	0	0	26	0.83
396402--396450	9	5.1	10	76	16	50	69	0	0	30	0.89
396387--396478	29	3.3	29	74	17	88	66	0	1	32	0.99
396413--396453	11	3.6	12	80	12	50	68	0	0	31	0.90
396397--396461	18	3.4	19	80	14	71	67	0	0	32	0.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21