genome.fa.s515.2.7.7.80.10.50.1000.3.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: Scaffold515
Parameters: 2 7 7 80 10 50 1000
Length:  459219

Tables:   1   2   3   4   

This is table  3  of  4  ( 410 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)
308956--309040	20	4.2	20	76	8	84	56	1	0	42	1.07
308929--309025	39	2.5	39	83	8	126	50	0	1	48	1.07
309006--309048	22	2.0	22	86	9	61	62	2	0	34	1.08
309389--309438	11	4.4	11	80	9	64	84	0	12	4	0.76
309391--309440	25	2.0	24	84	3	64	82	0	12	6	0.85
309391--309437	24	2.0	24	86	0	67	82	0	12	4	0.80
309845--309873	2	14.5	2	100	0	58	48	0	0	51	1.00
311676--311710	13	2.5	14	90	9	54	45	0	0	54	0.99
312132--312165	16	2.1	17	88	5	52	58	2	0	38	1.13
312698--312788	31	2.8	34	77	19	104	58	1	2	38	1.18
317715--317773	31	1.9	31	86	3	84	59	0	6	33	1.24
324380--324412	15	2.1	16	88	5	50	39	0	3	57	1.14
324387--324441	19	2.6	22	77	19	71	43	0	5	50	1.25
324435--324480	11	4.2	11	81	10	58	34	4	0	60	1.16
324385--324458	27	2.8	26	76	11	62	41	1	4	52	1.28
324706--324773	25	2.8	25	83	14	81	41	0	1	57	1.08
324714--324773	25	2.4	25	88	5	86	41	0	1	56	1.09
325336--325406	33	2.1	35	82	10	85	40	1	0	57	1.07
325837--325880	22	1.9	24	86	9	65	70	2	0	27	0.99
325870--325924	24	2.3	24	78	6	67	52	5	3	38	1.42
326694--326737	19	2.2	20	84	4	54	34	0	2	63	1.07
326720--326765	19	2.4	19	85	10	58	21	2	6	69	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
331242--331293	20	2.6	21	87	6	72	46	0	1	51	1.12
332216--332250	2	17.5	2	100	0	70	51	0	0	48	1.00
332894--332959	20	3.3	20	84	0	96	63	1	1	33	1.13
333061--333094	3	11.3	3	100	0	68	32	0	0	67	0.91
333461--333486	10	2.6	10	100	0	52	57	0	0	42	0.98
336085--336112	2	14.0	2	100	0	56	50	0	0	50	1.00
338441--338511	27	2.6	27	84	6	81	25	7	21	46	1.76
338584--338622	20	2.0	20	90	5	62	15	53	5	25	1.62
343015--343080	27	2.4	27	90	7	98	22	7	22	46	1.77
343158--343196	20	2.0	19	85	5	51	15	51	5	28	1.64
343806--343835	6	4.8	6	95	4	51	53	0	0	46	1.00
344240--344300	20	3.1	20	78	2	61	54	0	1	44	1.10
344205--344308	35	2.9	35	75	13	104	52	1	0	44	1.18
345298--345335	14	2.8	14	84	15	53	23	5	0	71	1.07
346728--346812	14	6.4	14	69	17	56	57	0	1	41	1.06
346743--346776	16	2.1	16	88	0	50	67	0	0	32	0.91
346711--346817	37	2.8	39	78	8	112	57	0	1	41	1.10
347049--347099	20	2.4	22	81	15	63	43	0	0	56	0.99
351583--351651	28	2.5	27	86	6	86	27	5	20	46	1.73
351724--351762	20	2.0	20	90	5	62	15	53	5	25	1.62
356148--356213	27	2.4	27	90	7	98	22	7	22	46	1.77
356291--356329	20	2.0	20	90	5	62	15	53	5	25	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356939--356974	6	5.8	6	96	3	63	52	0	0	47	1.00
357379--357444	13	4.7	14	69	14	55	54	0	1	43	1.09
357348--357491	36	4.1	35	73	18	102	54	2	0	43	1.17
358613--358649	2	18.5	2	100	0	74	51	0	0	48	1.00
358878--358909	2	15.5	2	93	6	55	46	0	3	50	1.17
359900--359984	14	6.4	14	69	17	56	57	0	1	41	1.06
359915--359948	16	2.1	16	88	0	50	67	0	0	32	0.91
359883--359989	37	2.8	39	78	8	112	57	0	1	41	1.10
360222--360272	20	2.4	22	81	15	63	43	0	0	56	0.99
360245--360283	15	2.6	16	84	12	55	41	0	0	58	0.98
360260--360308	13	3.6	13	81	15	55	32	0	0	67	0.91
360259--360302	19	2.4	18	81	7	54	31	0	0	68	0.90
360261--360320	11	5.8	10	81	11	59	35	1	0	63	1.05
361599--361628	4	7.5	4	100	0	60	26	0	0	73	0.84
369539--369575	2	18.5	2	100	0	74	48	0	0	51	1.00
370268--370308	2	20.5	2	100	0	82	0	48	0	51	1.00
370610--370647	14	2.8	13	88	11	58	52	2	0	44	1.14
370819--370865	16	2.9	16	87	3	58	51	0	0	48	1.00
370949--370996	13	3.8	12	78	13	51	52	6	0	41	1.27
370940--370995	26	2.1	28	87	9	82	51	7	0	41	1.29
370940--370982	12	3.2	13	80	12	52	53	9	0	37	1.33
370929--370996	22	3.0	22	73	23	59	54	5	0	39	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
371285--371309	11	2.3	11	100	0	50	44	0	0	56	0.99
371319--371377	19	3.2	18	80	9	66	52	3	0	44	1.17
372199--372289	21	4.3	21	76	8	69	36	12	1	50	1.47
372387--372431	21	2.1	21	83	0	54	60	2	6	31	1.35
372401--372446	19	2.3	21	85	7	60	65	0	2	32	1.05
372984--373047	13	4.8	13	69	17	51	64	0	1	34	1.03
374013--374050	15	2.4	17	86	8	53	42	0	0	57	0.98
374872--374906	18	1.9	18	88	0	52	74	5	20	0	1.02
378154--378195	21	2.0	21	86	9	59	38	2	0	59	1.10
379651--379696	14	3.3	14	75	0	56	36	2	4	56	1.31
380891--380915	2	12.5	2	100	0	50	52	0	0	48	1.00
382328--382418	28	3.1	29	84	4	112	58	1	2	38	1.18
382403--382453	17	3.0	17	78	16	52	76	0	1	21	0.88
384414--384454	2	20.5	2	89	0	64	48	2	2	46	1.28
385096--385136	22	1.9	21	85	5	55	53	4	4	36	1.44
385188--385218	4	7.8	4	100	0	62	22	0	0	77	0.77
385418--385456	19	2.2	17	86	9	51	33	2	0	64	1.08
385563--385628	11	6.7	10	73	19	59	27	0	1	71	0.95
385574--385618	17	2.7	16	86	6	54	24	0	0	75	0.80
386122--386151	11	2.6	11	94	5	51	30	0	0	70	0.88
386165--386211	6	8.0	6	85	2	51	59	0	0	40	0.97
386400--386463	27	2.5	25	79	20	71	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)
387000--387144	23	6.7	22	68	21	67	52	2	1	44	1.21
387003--387048	15	2.9	16	78	12	51	52	2	0	45	1.13
387020--387072	23	2.3	23	86	0	70	50	0	1	47	1.12
387040--387101	32	1.9	33	87	9	92	51	1	1	45	1.20
388029--388072	15	3.0	15	80	16	56	56	2	0	40	1.11
390055--390104	16	3.1	16	72	18	50	26	0	6	68	1.13
390329--390368	20	2.1	19	86	9	55	42	2	0	55	1.13
390373--390412	21	2.0	21	85	5	55	45	0	0	55	0.99
390654--390753	5	21.2	5	69	20	56	60	0	0	40	0.97
390650--390731	26	3.1	27	80	11	91	57	0	0	42	0.98
390654--390756	18	5.8	18	68	17	54	60	0	0	39	0.97
392475--392500	2	13.0	2	100	0	52	50	0	0	50	1.00
394077--394106	15	2.0	15	93	0	51	60	10	3	26	1.45
395899--395946	20	2.3	21	89	7	80	62	0	8	29	1.24
396773--396809	13	2.9	13	81	18	51	40	0	0	59	0.97
400119--400237	60	2.0	60	96	0	220	28	21	31	19	1.97
402429--402473	23	1.9	24	86	4	65	28	0	4	66	1.11
404756--404799	16	2.8	15	83	16	54	52	2	2	43	1.26
404958--405002	23	1.9	24	95	4	83	40	0	4	55	1.20
404958--405004	13	3.8	13	75	16	55	38	0	4	57	1.18
405200--405236	2	19.0	2	94	5	67	51	0	0	48	1.00
406216--406246	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
406490--406548	29	2.1	28	84	9	75	38	5	1	54	1.33
406592--406668	11	7.0	11	75	15	70	33	1	0	64	1.01
406963--407005	18	2.4	18	80	3	52	58	0	2	39	1.11
407720--407759	19	2.1	19	90	0	62	37	10	20	32	1.85
408549--408599	15	3.3	15	83	8	66	33	1	3	60	1.26
408578--408615	20	1.9	20	84	10	51	39	5	0	55	1.23
408817--408859	18	2.5	17	81	11	52	41	0	2	55	1.12
411595--411644	10	4.9	10	81	11	57	32	0	0	68	0.90
411591--411655	22	2.9	23	78	15	66	33	1	0	64	1.03
411608--411650	23	1.9	22	95	4	77	27	0	0	72	0.85

Tables:   1   2   3   4