genome.fa.s283.2.7.7.80.10.50.1000.13.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: Scaffold283
Parameters: 2 7 7 80 10 50 1000
Length:  2945114

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

This is table  13  of  15  ( 1700 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)
2432739--2432767	3	9.7	3	100	0	58	31	0	0	68	0.89
2434312--2434346	17	2.1	17	89	5	54	82	0	5	11	0.82
2436015--2436039	2	12.5	2	100	0	50	48	0	0	52	1.00
2437928--2437980	21	2.5	21	78	9	63	52	1	0	45	1.11
2437990--2438055	26	2.3	28	82	12	73	65	1	0	33	1.02
2441199--2441237	12	3.2	12	85	0	51	43	5	5	46	1.48
2441992--2442057	28	2.4	28	78	14	73	45	0	0	54	0.99
2441976--2442043	22	2.9	24	73	20	72	47	0	0	52	1.00
2441971--2442053	22	3.7	23	68	22	59	49	0	0	50	1.00
2446847--2447032	87	2.1	87	92	0	309	31	18	22	28	1.97
2452173--2452252	24	3.3	25	77	5	83	58	1	0	40	1.06
2452181--2452215	17	2.1	17	88	0	52	54	0	0	45	0.99
2452192--2452256	25	2.5	26	80	10	69	63	1	0	35	1.04
2452208--2452314	35	2.9	37	80	9	89	55	1	0	42	1.17
2452248--2452314	35	1.9	35	84	6	91	50	1	1	46	1.19
2471236--2471280	2	22.5	2	100	0	90	51	0	0	48	1.00
2471586--2471619	2	17.0	2	93	0	59	47	0	2	50	1.16
2471767--2471798	2	16.0	2	100	0	64	50	0	0	50	1.00
2472000--2472039	21	1.9	21	84	0	53	30	7	5	57	1.48
2472643--2472730	39	2.3	39	92	3	144	32	7	5	53	1.54
2476654--2476742	18	4.7	18	72	14	54	55	0	1	43	1.07
2476680--2476741	5	12.2	5	75	13	56	59	0	1	38	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2476659--2476742	27	3.3	25	75	17	66	55	0	1	42	1.07
2476685--2476742	11	5.6	11	78	19	63	58	0	1	39	1.08
2479445--2479475	2	15.5	2	100	0	62	48	0	0	51	1.00
2479813--2479861	22	2.2	23	85	3	64	65	0	0	34	0.93
2480172--2480206	2	18.5	2	88	11	56	51	0	0	48	1.00
2485458--2485518	24	2.5	24	78	5	70	52	0	0	47	1.00
2485458--2485539	34	2.4	34	78	12	87	50	0	0	50	1.00
2485463--2485564	54	1.9	53	82	9	127	51	0	0	47	1.07
2485955--2486002	3	15.7	3	83	12	62	37	0	2	60	1.09
2486466--2486511	17	2.8	17	81	15	60	52	0	0	47	1.00
2494826--2494855	2	15.0	2	100	0	60	50	0	0	50	1.00
2505355--2505399	17	2.6	17	96	0	81	55	0	0	44	0.99
2507556--2507589	18	1.9	17	88	5	50	58	2	0	38	1.13
2520350--2520455	53	2.0	53	100	0	212	30	22	13	33	1.92
2520899--2520943	20	2.3	18	81	11	54	62	0	0	37	0.96
2520938--2520977	18	2.4	16	91	8	62	67	0	0	32	0.91
2521390--2521487	37	2.6	37	88	6	110	23	16	11	48	1.78
2524605--2524632	2	14.0	2	100	0	56	50	0	0	50	1.00
2527740--2527764	3	8.3	3	100	0	50	32	0	0	68	0.90
2530589--2530629	20	2.1	19	86	4	55	34	17	24	24	1.96
2530940--2530978	2	20.0	2	86	5	53	56	0	43	0	0.99
2531947--2531982	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)
2532859--2532921	30	2.1	30	96	0	117	41	0	4	53	1.22
2532959--2533012	5	11.6	5	73	15	53	38	1	0	59	1.08
2532958--2533012	28	2.0	28	85	7	76	38	1	0	60	1.08
2535043--2535087	2	22.5	2	100	0	90	48	0	0	51	1.00
2537681--2537705	2	12.5	2	100	0	50	0	48	0	52	1.00
2567447--2567491	13	3.0	15	81	18	58	40	0	0	60	0.97
2571427--2571474	23	2.1	23	100	0	96	47	27	12	12	1.77
2576999--2577034	3	11.7	3	88	5	54	72	0	0	27	0.85
2577002--2577035	16	2.1	16	94	0	59	73	0	0	26	0.83
2576998--2577034	19	1.9	19	94	0	65	72	0	0	27	0.84
2577720--2577751	6	5.3	6	96	0	55	3	15	31	50	1.60
2583702--2583736	3	11.7	3	100	0	70	68	0	31	0	0.90
2584202--2584235	12	2.6	14	86	13	54	73	0	20	5	1.04
2584294--2584326	2	16.5	2	100	0	66	48	0	51	0	1.00
2585113--2585141	13	2.1	14	93	6	51	27	31	3	37	1.73
2589055--2589097	6	7.2	6	94	0	77	13	51	18	16	1.77
2589051--2589097	18	2.6	18	96	0	85	12	51	21	14	1.76
2590323--2590348	2	13.0	2	100	0	52	50	0	0	50	1.00
2590831--2590868	2	20.0	2	84	10	53	44	0	0	55	0.99
2591475--2591515	20	2.0	20	100	0	82	39	4	14	41	1.67
2596533--2596572	2	20.0	2	100	0	80	50	0	0	50	1.00
2598438--2598474	2	18.5	2	100	0	74	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)
2601948--2601984	18	2.1	18	94	0	65	27	24	18	29	1.98
2606235--2606331	44	2.2	43	81	13	110	54	0	1	44	1.06
2606250--2606342	26	3.2	29	73	23	81	58	0	0	41	0.98
2606246--2606316	36	2.0	36	86	10	101	59	0	0	40	0.98
2606246--2606315	18	3.8	18	71	22	56	60	0	0	40	0.97
2606249--2606338	37	2.5	36	81	15	98	60	0	0	40	0.97
2608899--2608939	20	2.0	21	85	4	57	31	0	0	68	0.90
2608903--2608954	22	2.4	22	74	6	52	40	0	0	59	0.97
2609082--2609130	10	4.6	10	78	14	53	63	0	2	34	1.06
2609085--2609150	23	2.9	24	78	15	77	65	1	1	31	1.11
2609104--2609135	16	2.0	16	93	0	55	71	0	0	28	0.86
2610719--2610756	20	1.9	20	100	0	76	57	2	10	28	1.45
2610890--2610917	3	9.3	3	100	0	56	0	35	0	64	0.94
2618671--2618698	6	4.7	6	100	0	56	28	0	0	71	0.86
2618965--2619004	2	20.5	2	94	5	73	52	0	0	47	1.00
2629755--2629781	12	2.2	12	100	0	54	40	33	0	25	1.56
2633026--2633084	2	29.5	2	85	0	55	42	45	8	3	1.51
2637998--2638043	23	1.9	25	82	8	60	45	2	0	52	1.13
2638042--2638101	22	2.7	24	75	15	65	66	0	1	31	1.01
2638202--2638292	33	2.7	33	81	8	87	42	1	0	56	1.06
2652203--2652240	3	12.7	3	100	0	76	34	0	0	65	0.93
2652336--2652377	11	3.8	11	78	12	50	40	4	0	54	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2653057--2653099	18	2.3	18	84	11	52	20	9	9	60	1.55
2653047--2653097	19	2.6	19	73	17	50	15	11	7	64	1.48
2663044--2663097	22	2.6	21	83	13	60	50	0	1	48	1.11
2663044--2663081	17	2.1	19	85	9	53	50	0	0	50	1.00
2667662--2667690	14	2.1	14	100	0	58	44	0	6	48	1.29
2670190--2670280	44	2.1	44	100	0	182	30	14	21	32	1.93
2671010--2671036	2	13.5	2	100	0	54	48	0	0	51	1.00
2672059--2672113	27	2.0	27	92	0	92	58	20	10	10	1.62
2674084--2674135	23	2.3	23	80	6	61	50	0	1	48	1.12
2677456--2677493	3	12.7	3	94	0	67	63	0	34	2	1.09
2686421--2686528	23	4.4	23	73	15	92	37	0	0	62	1.02
2686856--2686896	2	20.5	2	94	0	73	46	0	2	51	1.14
2687128--2687166	9	4.2	9	83	6	51	64	0	0	35	0.94
2687127--2687183	18	3.2	18	83	9	64	59	1	0	38	1.08
2687136--2687185	18	2.7	19	84	9	68	60	2	0	38	1.09
2689098--2689124	2	13.5	2	100	0	54	51	0	0	48	1.00
2689333--2689359	13	2.1	13	100	0	54	29	7	18	44	1.77
2691328--2691357	14	2.1	14	100	0	60	26	6	20	46	1.75
2691394--2691482	14	6.3	14	68	12	65	28	19	20	32	1.96
2691390--2691429	13	2.9	14	81	7	55	27	25	25	22	2.00
2696691--2696761	2	34.0	2	72	8	52	43	1	8	46	1.42
2700589--2700631	3	14.0	3	81	13	52	0	30	2	67	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2703207--2703423	34	6.4	34	83	2	258	26	6	25	41	1.80
2703207--2703423	102	2.1	101	88	3	319	26	6	25	41	1.80
2707832--2708084	34	7.5	34	85	1	321	25	7	25	41	1.81
2707832--2708083	102	2.5	101	88	1	360	25	7	25	41	1.80
2713361--2713396	18	2.0	18	94	0	63	22	47	11	19	1.80
2713943--2713981	20	2.0	20	100	0	78	30	0	0	69	0.89
2713944--2713982	10	3.9	10	87	12	62	30	0	0	69	0.89
2714362--2714406	22	2.1	21	84	12	56	48	0	0	51	1.00
2714753--2714795	12	3.7	11	80	19	52	37	0	4	58	1.19
2714800--2714859	14	4.6	14	74	19	51	60	1	0	38	1.07

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