genome.fa.s21.2.7.7.80.10.50.1000.14.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: Scaffold21
Parameters: 2 7 7 80 10 50 1000
Length:  2821038

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

This is table  14  of  15  ( 1753 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)
2353114--2353173	31	1.9	32	83	10	79	53	0	0	46	1.00
2354093--2354125	15	2.1	17	88	11	52	39	0	0	60	0.97
2355997--2356045	17	2.9	17	72	24	50	44	0	0	55	0.99
2356003--2356040	17	2.1	17	90	9	58	44	0	0	55	0.99
2361373--2361399	2	13.5	2	100	0	54	51	0	0	48	1.00
2361818--2361854	2	19.0	2	88	5	58	54	0	0	45	1.00
2362840--2362864	6	4.2	6	100	0	50	0	16	16	68	1.22
2368215--2368261	24	2.0	24	91	8	78	17	10	34	38	1.84
2373258--2373283	3	8.7	3	100	0	52	69	0	0	30	0.89
2373533--2373589	23	2.5	23	85	2	71	43	0	1	54	1.10
2373544--2373612	22	3.0	23	81	8	70	50	0	1	47	1.09
2373558--2373634	37	2.1	36	80	7	84	50	1	2	45	1.23
2391785--2391855	32	2.3	32	88	9	103	43	0	1	54	1.08
2391785--2391874	31	2.9	31	79	15	89	47	0	1	51	1.08
2391880--2391924	21	2.0	23	83	8	58	60	0	0	40	0.97
2392507--2392536	16	1.9	16	93	6	53	56	0	3	40	1.16
2399529--2399606	32	2.4	32	87	6	104	57	1	0	41	1.07
2399543--2399581	21	1.9	20	89	5	60	58	0	0	41	0.98
2399540--2399587	20	2.4	20	82	6	62	58	0	0	41	0.98
2399543--2399604	15	3.5	19	69	26	64	58	1	0	40	1.08
2410172--2410332	21	7.7	21	75	2	110	18	37	16	27	1.92
2410169--2410296	42	3.0	42	81	2	123	16	39	16	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2410382--2410531	21	7.1	21	78	3	97	24	41	9	24	1.84
2410373--2410531	63	2.5	63	77	7	153	25	42	8	23	1.83
2410451--2410657	21	9.9	21	73	3	112	25	43	7	23	1.79
2410496--2410656	84	1.9	84	83	0	205	24	45	6	22	1.77
2410373--2410699	42	7.8	41	75	6	174	24	43	8	23	1.82
2410496--2410699	84	2.4	84	80	1	203	24	44	8	22	1.81
2415063--2415104	19	2.2	20	82	4	50	52	0	2	45	1.13
2415133--2415184	25	2.1	25	82	7	61	51	0	1	46	1.12
2415244--2415296	19	2.7	21	82	8	67	56	0	3	39	1.17
2415390--2415420	16	1.9	16	100	0	62	25	0	0	74	0.82
2415572--2415616	22	2.0	23	86	8	65	42	0	0	57	0.98
2415572--2415620	24	2.0	24	85	14	66	40	0	0	59	0.98
2415569--2415630	28	2.5	23	73	24	63	40	0	0	59	0.97
2419434--2419497	24	2.6	25	74	20	62	65	1	0	32	1.02
2419464--2419549	17	4.4	18	73	20	66	56	0	1	41	1.06
2419439--2419516	24	3.5	22	73	15	54	64	1	1	33	1.10
2419487--2419541	17	3.1	18	80	12	69	58	0	1	40	1.09
2420103--2420207	14	7.5	14	69	13	65	52	1	2	42	1.27
2420138--2420199	28	2.2	28	85	5	81	46	1	1	50	1.20
2420094--2420199	55	1.9	56	80	7	126	49	1	2	46	1.27
2427420--2427450	2	15.5	2	100	0	62	0	51	0	48	1.00
2429052--2429091	7	5.7	7	96	0	62	30	37	0	32	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2429047--2429091	14	3.2	14	90	0	63	28	37	0	33	1.58
2433537--2433568	9	3.6	9	100	0	64	0	0	21	78	0.76
2433673--2433702	2	15.0	2	100	0	60	50	0	0	50	1.00
2437481--2437524	18	2.3	19	80	15	54	31	2	2	63	1.19
2437553--2437614	25	2.6	24	75	12	65	58	0	4	37	1.20
2441277--2441376	11	9.9	10	70	19	57	57	1	1	41	1.12
2442374--2442398	2	12.5	2	100	0	50	48	0	0	52	1.00
2443348--2443389	23	1.9	21	85	9	57	26	2	57	14	1.50
2443531--2443555	1	25.0	1	100	0	50	0	100	0	0	0.00
2446371--2446422	27	1.9	27	84	7	70	73	0	0	26	0.84
2449381--2449430	2	25.0	2	100	0	100	50	0	0	50	1.00
2459746--2459782	1	37.0	1	100	0	74	0	0	100	0	0.00
2467622--2467777	78	2.0	78	98	0	303	44	17	14	23	1.85
2470686--2470715	2	15.0	2	92	0	51	50	3	0	46	1.18
2478218--2478251	2	17.0	2	100	0	68	50	0	0	50	1.00
2488748--2488784	3	12.3	3	94	0	65	70	0	29	0	0.88
2491999--2492031	2	16.5	2	100	0	66	48	0	0	51	1.00
2492212--2492242	1	31.0	1	100	0	62	0	0	0	100	0.00
2498919--2498973	20	2.8	19	88	5	74	41	16	12	29	1.85
2499033--2499058	13	2.0	13	100	0	52	38	15	15	30	1.88
2503211--2503279	23	2.9	24	80	2	77	30	1	15	52	1.52
2512731--2512764	2	17.0	2	100	0	68	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)
2514385--2514442	11	5.0	12	70	16	50	53	0	0	46	1.00
2514385--2514446	23	2.7	24	77	7	74	53	0	0	46	1.00
2514833--2514866	16	2.1	17	88	5	52	44	0	2	52	1.16
2514943--2514988	20	2.3	21	89	10	71	50	0	0	50	1.00
2514949--2514996	21	2.3	21	85	7	71	43	0	2	54	1.12
2514948--2515057	51	2.2	52	79	11	120	48	1	1	48	1.23
2515305--2515376	14	4.9	14	77	9	54	65	2	1	30	1.15
2515316--2515355	16	2.6	16	85	14	57	65	5	0	30	1.14
2515810--2515863	26	2.2	24	84	12	67	51	1	0	46	1.11
2515972--2516037	24	2.8	24	76	4	71	31	3	0	65	1.08
2520791--2520817	2	13.5	2	100	0	54	51	0	48	0	1.00
2527117--2527164	23	2.0	24	84	4	62	47	2	0	50	1.12
2527217--2527296	17	4.6	17	71	18	58	38	0	2	58	1.11
2527213--2527296	11	7.0	13	67	24	51	39	0	2	58	1.11
2527315--2527357	18	2.4	18	88	0	59	62	0	4	32	1.15
2527561--2527632	16	4.4	16	71	22	60	37	2	1	58	1.21
2527555--2527620	31	2.3	29	82	12	75	37	4	0	57	1.19
2527863--2527927	3	22.0	3	75	9	53	60	0	1	38	1.07
2528977--2529013	2	18.5	2	94	0	65	48	0	2	48	1.15
2530252--2530276	2	12.5	2	100	0	50	52	48	0	0	1.00
2531897--2531956	30	2.0	30	100	0	120	43	6	16	33	1.74
2536897--2536927	3	10.3	3	92	0	53	3	32	29	35	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2537957--2537993	11	3.3	11	92	7	65	51	16	0	32	1.45
2537957--2537993	12	3.2	12	96	3	67	51	16	0	32	1.45
2543106--2543185	21	3.9	21	72	12	67	58	1	0	40	1.06
2543148--2543195	21	2.3	22	78	10	55	56	0	0	43	0.99
2543496--2543530	3	11.7	3	100	0	70	65	0	0	34	0.93
2551523--2551561	2	19.5	2	94	0	69	51	0	0	48	1.00
2551963--2551990	2	14.0	2	100	0	56	50	0	0	50	1.00
2551990--2552026	2	18.5	2	100	0	74	51	0	48	0	1.00
2557857--2557885	2	14.5	2	100	0	58	51	0	0	48	1.00
2566486--2566515	15	2.1	15	93	6	53	63	0	26	10	1.26
2569968--2569992	1	25.0	1	100	0	50	100	0	0	0	0.00
2575526--2575576	26	2.0	26	92	0	84	47	19	15	17	1.83
2576808--2576836	2	14.5	2	100	0	58	51	0	0	48	1.00
2580011--2580039	3	9.7	3	100	0	58	65	0	34	0	0.93
2601919--2601943	2	12.5	2	100	0	50	0	48	0	52	1.00
2608371--2608415	2	22.5	2	100	0	90	51	0	0	48	1.00
2610028--2610071	21	2.0	21	91	4	70	59	2	22	15	1.48
2610034--2610075	21	2.0	20	95	4	75	57	4	23	14	1.56
2610264--2610305	2	21.0	2	100	0	84	50	0	0	50	1.00
2610353--2610384	2	16.0	2	93	0	55	46	0	3	50	1.17
2612659--2612745	44	2.0	44	93	0	147	29	27	9	33	1.88
2615698--2615733	2	18.0	2	94	0	63	50	2	0	47	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2617500--2617530	2	15.5	2	100	0	62	48	0	0	51	1.00
2618416--2618459	2	22.0	2	100	0	88	50	0	50	0	1.00
2628344--2628370	2	13.5	2	100	0	54	0	48	0	51	1.00
2629230--2629276	6	7.8	6	85	0	58	10	51	4	34	1.56
2633484--2633559	6	12.8	6	72	16	52	64	1	0	34	1.02
2633485--2633558	21	3.7	21	80	8	75	64	1	0	33	1.02
2633645--2633877	35	6.6	36	73	16	150	57	0	0	41	1.08
2633686--2633781	37	2.5	42	71	25	102	60	1	0	38	1.04
2633732--2633870	31	4.2	31	73	17	118	54	0	1	43	1.14
2633652--2633869	72	3.1	72	83	7	270	56	0	0	41	1.09

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