genome.fa.s112.2.7.7.80.10.50.1000.3.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: Scaffold112
Parameters: 2 7 7 80 10 50 1000
Length:  1714866

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1240 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)
250611--250661	25	2.0	25	85	7	68	70	1	1	25	1.08
252448--252491	18	2.5	17	75	10	52	50	2	2	45	1.27
252873--252909	17	2.1	19	85	10	51	56	13	5	24	1.58
252917--252991	39	1.9	39	97	0	141	48	2	8	41	1.47
255206--255255	16	3.2	16	77	2	57	42	0	0	58	0.98
255266--255307	20	2.2	19	86	4	57	45	0	0	54	0.99
255548--255595	10	4.9	10	80	14	55	60	0	0	39	0.97
255537--255583	18	2.6	18	86	3	67	59	0	2	38	1.09
255761--255793	5	6.6	5	86	13	50	57	0	3	39	1.14
255761--255793	9	3.3	10	84	16	50	57	0	3	39	1.14
255873--255917	19	2.3	20	88	3	65	60	6	6	26	1.47
255850--255917	20	3.6	19	78	15	70	60	5	10	23	1.51
256305--256356	25	2.1	24	86	10	70	34	9	7	48	1.65
256905--256948	16	2.8	16	86	6	54	43	0	2	54	1.12
256918--256950	16	2.1	16	94	0	57	48	0	0	51	1.00
256918--256973	18	3.2	17	82	9	69	46	0	1	51	1.11
260796--260829	14	2.5	14	90	4	52	41	0	0	58	0.98
261620--261685	8	7.4	9	72	14	57	57	0	0	42	0.98
261620--261685	17	3.8	16	73	15	51	57	0	0	42	0.98
271377--271403	2	13.5	2	100	0	54	51	0	0	48	1.00
271682--271731	13	3.9	13	78	5	57	48	0	0	52	1.00
272620--272661	12	3.7	12	87	9	61	0	16	2	80	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
272620--272662	6	7.8	5	92	7	50	0	18	2	79	0.85
272703--272769	2	33.5	2	84	0	89	50	5	0	43	1.26
272842--272892	20	2.7	19	85	11	61	3	25	0	70	1.04
273275--273334	25	2.4	24	73	13	59	53	6	3	36	1.44
277587--277645	18	3.4	18	79	9	61	54	0	0	45	0.99
279057--279097	19	2.3	17	87	8	55	51	0	4	43	1.23
279067--279133	27	2.3	27	85	10	80	61	0	1	37	1.05
279087--279120	17	2.0	17	94	0	59	67	0	0	32	0.91
279085--279142	27	2.1	28	84	9	75	62	1	1	34	1.16
279125--279176	19	2.6	20	75	9	52	57	3	5	32	1.40
281237--281272	16	2.2	16	100	0	72	58	0	0	41	0.98
283044--283267	66	3.4	65	74	4	207	35	20	13	29	1.92
283043--283234	33	5.8	33	73	2	143	37	20	12	29	1.90
283214--283327	33	3.5	33	83	4	142	25	21	19	34	1.96
283346--283415	31	2.3	30	83	11	81	30	22	20	27	1.98
283423--283607	95	1.9	95	93	0	316	24	18	24	31	1.98
283757--283875	33	3.6	33	73	11	102	31	21	17	29	1.96
285002--285035	15	2.3	15	100	0	68	29	8	0	61	1.26
287138--289425	417	5.5	417	84	3	2710	32	18	22	26	1.97
294965--295012	20	2.4	19	83	13	60	60	2	0	37	1.09
296571--296596	2	13.0	2	100	0	52	50	0	0	50	1.00
296830--296891	32	1.9	32	93	0	106	45	1	1	51	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
296837--296895	16	3.7	16	74	19	52	45	1	1	50	1.21
298180--298239	29	2.0	30	96	3	113	20	6	20	53	1.67
306933--306961	12	2.5	12	94	5	51	48	6	0	44	1.29
307007--307044	10	3.8	10	89	0	58	63	5	0	31	1.17
307007--307044	20	1.9	20	94	0	67	63	5	0	31	1.17
310001--310028	11	2.5	11	100	0	56	42	0	17	39	1.50
310155--310223	27	2.6	26	75	11	68	59	0	0	40	0.97
310157--310225	26	2.6	27	84	8	81	60	0	0	39	0.97
311010--311077	33	2.1	33	97	0	127	20	22	20	36	1.95
311798--311839	14	3.3	13	87	12	61	73	0	0	26	0.83
313453--313486	17	2.0	17	88	0	50	8	11	0	79	0.94
314630--314659	15	2.0	15	93	0	51	56	6	0	36	1.26
314635--314668	15	2.3	15	89	0	50	58	2	0	38	1.13
315273--315310	2	19.0	2	94	0	67	52	0	47	0	1.00
316065--316122	30	1.9	30	89	6	91	48	0	10	41	1.37
318269--318306	13	2.8	13	85	14	51	55	2	7	34	1.43
318827--318877	21	2.3	21	83	6	57	50	1	3	43	1.31
322163--322198	14	2.6	13	87	12	54	2	8	0	88	0.59
322162--322231	24	2.9	24	86	0	104	4	8	4	82	0.92
322177--322217	18	2.4	18	84	8	59	4	9	2	82	0.89
326856--326937	1	82.0	1	77	0	74	0	6	6	87	0.66
326856--326937	26	3.1	25	89	10	119	0	6	6	87	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
326856--326937	22	3.8	20	83	15	92	0	6	6	87	0.66
326856--326937	32	2.6	31	88	5	119	0	6	6	87	0.66
335084--335109	13	2.0	13	100	0	52	38	15	15	30	1.88
335062--335129	33	2.1	32	91	8	111	32	16	16	35	1.91
335198--335222	13	1.9	13	100	0	50	36	16	16	32	1.90
335695--335764	33	2.1	33	86	0	95	42	4	4	48	1.42
336330--336365	15	2.3	15	90	4	54	72	2	0	25	0.98
336329--336366	8	4.8	8	87	9	51	73	2	0	23	0.95
340733--340761	14	2.1	14	100	0	58	44	20	6	27	1.77
344830--344960	65	2.0	65	100	0	262	30	19	15	34	1.93
362169--362221	18	2.7	20	74	11	56	35	1	3	58	1.27
363976--364027	19	2.7	20	84	3	70	32	0	0	67	0.91
365224--365297	37	2.0	37	100	0	148	32	8	24	35	1.85
370424--370449	2	13.0	2	100	0	52	50	0	0	50	1.00
371580--371607	3	9.3	3	100	0	56	64	0	0	35	0.94
371646--371692	24	2.0	23	83	8	58	44	0	0	55	0.99
371652--371734	8	10.4	8	70	10	53	42	1	0	56	1.07
375377--375410	5	6.8	5	86	0	50	17	2	2	76	1.04
375922--376049	19	6.4	20	66	17	52	62	0	0	36	1.01
375949--376060	8	13.9	8	70	23	58	62	0	0	37	0.95
375936--376029	32	2.6	38	71	26	94	59	0	0	40	0.97
375926--376024	49	2.0	51	81	15	118	59	1	0	39	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375951--376028	32	2.5	31	89	6	113	58	0	0	41	0.98
375955--376033	19	4.1	18	77	16	61	55	0	0	44	0.99
376161--376257	20	4.7	20	73	15	63	56	0	3	40	1.15
376190--376300	24	4.8	24	68	23	76	64	0	0	34	1.00
376194--376294	7	14.1	7	69	18	57	65	0	0	33	1.00
376187--376292	43	2.4	45	83	9	139	64	0	0	34	1.00
376191--376297	16	6.9	16	67	19	66	65	0	0	33	0.99
376177--376298	10	11.9	10	67	20	65	63	0	1	34	1.04
376180--376301	63	2.0	63	82	8	151	63	0	1	35	1.05
377070--377119	16	3.2	16	72	13	50	52	0	0	48	1.00
377086--377134	22	2.1	24	85	11	66	48	0	0	51	1.00
377355--377412	30	2.0	29	86	3	80	55	1	0	43	1.10
378014--378056	6	7.7	6	85	12	56	41	0	0	58	0.98
378014--378056	11	3.9	11	90	6	61	41	0	0	58	0.98
378014--378056	17	2.6	16	92	7	68	41	0	0	58	0.98
387568--387600	16	2.1	16	100	0	66	39	6	12	42	1.67
387844--387872	11	2.5	12	88	11	51	27	0	0	72	0.85
388087--388188	37	2.8	38	77	14	110	49	1	2	46	1.28
389789--389816	2	14.0	2	100	0	56	50	0	0	50	1.00
391728--391818	32	2.7	34	83	10	123	53	1	1	43	1.15
391728--391819	16	5.6	16	73	17	64	54	1	1	43	1.14
391958--391990	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396117--396201	20	4.4	19	74	14	75	61	1	0	37	1.04
396698--396739	7	5.9	7	97	2	75	26	28	16	28	1.97
396859--396913	28	2.0	27	89	3	83	30	16	10	41	1.83
398532--398625	47	2.0	47	97	0	179	40	18	14	26	1.89
401326--401375	17	2.9	17	74	11	57	40	0	0	60	0.97
401560--401624	32	2.0	33	82	8	80	52	1	1	44	1.19
402744--402775	2	16.0	2	100	0	64	50	0	0	50	1.00
403017--403058	20	2.1	20	100	0	84	35	9	4	50	1.56
404830--404861	6	5.3	6	96	0	55	34	0	46	18	1.49
406965--406992	11	2.5	11	100	0	56	42	0	0	57	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11