genome.fa.s223.2.7.7.80.10.50.1000.14.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  14  of  26  ( 3021 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)
2340846--2340884	3	13.0	3	94	0	69	66	2	0	30	1.05
2341729--2341759	3	10.3	3	92	0	53	64	0	32	3	1.09
2345499--2345523	2	12.5	2	100	0	50	52	0	48	0	1.00
2346901--2346937	18	2.1	18	94	0	65	35	13	24	27	1.93
2348452--2348488	2	18.5	2	100	0	74	51	0	0	48	1.00
2354268--2354299	6	5.2	6	96	3	55	81	0	15	3	0.82
2355060--2355089	2	15.0	2	92	0	51	50	0	3	46	1.18
2355318--2355366	16	3.0	16	84	3	62	57	2	0	40	1.10
2355324--2355371	16	3.0	15	81	6	51	52	2	0	45	1.12
2357644--2357670	2	13.5	2	100	0	54	51	0	0	48	1.00
2362544--2362578	14	2.3	16	90	9	56	51	5	0	42	1.25
2362732--2362774	20	2.2	20	100	0	86	32	0	0	67	0.91
2363832--2363890	25	2.4	26	77	8	70	45	0	0	54	0.99
2363856--2363953	39	2.3	44	80	13	109	51	0	0	48	1.00
2363856--2363942	43	2.0	42	85	14	115	50	0	0	49	1.00
2364306--2364362	21	2.7	21	81	8	62	42	0	0	57	0.98
2364336--2364383	13	3.5	14	78	10	55	43	0	0	56	0.99
2364292--2364360	21	3.3	20	75	13	59	42	0	0	57	0.98
2364327--2364388	20	3.2	19	80	15	65	38	0	0	61	0.96
2365507--2365538	14	2.3	14	94	0	55	43	0	0	56	0.99
2365571--2365639	28	2.5	27	77	11	77	40	0	0	59	0.97
2366162--2366222	22	2.8	22	80	11	72	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2366480--2366561	29	2.8	29	78	7	94	48	1	1	48	1.17
2366480--2366523	13	3.2	13	81	15	52	47	2	2	47	1.27
2366510--2366561	23	2.3	23	83	9	63	50	0	1	48	1.12
2367617--2367645	3	9.7	3	100	0	58	65	0	0	34	0.93
2367644--2367676	3	11.0	3	93	0	57	30	0	0	69	0.88
2368028--2368056	8	3.8	8	95	4	51	93	0	6	0	0.36
2372096--2372138	2	21.5	2	90	0	68	46	48	2	2	1.27
2372142--2372177	2	18.0	2	88	0	54	50	5	0	44	1.25
2372819--2372902	42	2.0	42	97	0	159	44	9	21	25	1.82
2377944--2377977	16	2.1	16	88	0	50	47	2	2	47	1.32
2380304--2380329	3	8.7	3	100	0	52	30	0	0	69	0.89
2382925--2382975	19	2.8	18	80	8	59	41	0	1	56	1.10
2385530--2385569	20	2.0	20	85	9	55	12	10	7	70	1.35
2386143--2386183	18	2.2	19	86	4	57	51	0	0	48	1.00
2390511--2390571	24	2.6	23	78	14	63	75	0	3	21	0.94
2390581--2390655	26	3.1	26	74	20	90	29	2	57	10	1.46
2390581--2390674	47	2.0	47	93	2	163	27	2	59	10	1.42
2391200--2391240	2	21.0	2	80	14	50	48	2	2	46	1.28
2392416--2392440	2	12.5	2	100	0	50	52	0	0	48	1.00
2392949--2393009	32	1.9	32	83	6	79	37	6	3	52	1.44
2393906--2393956	18	2.7	19	77	19	54	31	1	0	66	1.03
2393906--2393973	30	2.4	27	78	21	77	30	1	0	67	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2393924--2393996	21	3.3	21	71	14	67	36	0	0	63	0.95
2393931--2393998	11	5.9	11	73	16	50	36	0	0	63	0.95
2393925--2394005	13	6.2	13	74	17	60	37	0	0	62	0.95
2394292--2394328	19	1.9	19	88	0	56	45	0	0	54	1.00
2394314--2394368	25	2.1	27	86	6	78	52	0	0	47	1.00
2394780--2394822	18	2.4	18	92	7	70	46	0	0	53	1.00
2394780--2394829	18	2.8	18	84	3	57	52	0	0	48	1.00
2398311--2398362	2	27.0	2	79	14	56	50	3	1	44	1.31
2398304--2398356	13	4.2	13	78	11	56	49	7	1	41	1.42
2398311--2398358	19	2.4	21	86	6	64	50	4	2	43	1.33
2398457--2398493	3	12.3	3	100	0	74	35	0	0	64	0.94
2399110--2399153	19	2.3	18	85	11	61	25	0	0	75	0.81
2399528--2399552	13	1.9	13	100	0	50	56	0	0	44	0.99
2399942--2399983	6	7.0	6	80	20	52	30	0	2	66	1.04
2399941--2399981	13	3.3	13	83	16	52	26	0	2	70	0.99
2399933--2399968	16	2.1	16	90	10	54	27	0	5	66	1.13
2399933--2399983	18	2.9	17	83	16	61	29	0	3	66	1.09
2400058--2400097	18	2.1	19	86	9	55	35	0	0	65	0.93
2400555--2400596	17	2.5	17	76	11	50	50	0	0	50	1.00
2402313--2402369	30	1.9	30	85	7	80	45	0	1	52	1.11
2405889--2405945	24	2.3	25	79	11	64	56	0	1	42	1.10
2405972--2406020	19	2.5	19	83	12	64	61	4	0	34	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2405972--2406022	13	3.8	13	78	17	52	60	3	0	35	1.15
2407270--2407303	2	17.0	2	87	0	50	47	2	0	50	1.16
2413967--2414051	31	2.8	30	76	18	86	57	1	1	40	1.14
2413970--2414067	30	3.2	30	73	12	92	54	1	1	43	1.14
2417674--2417709	10	4.0	9	86	13	56	77	0	0	22	0.76
2417066--2418149	545	2.0	543	83	5	1397	48	9	18	23	1.78
2418142--2418170	9	3.3	9	90	9	51	82	6	0	10	0.83
2418533--2418580	24	2.0	24	100	0	96	50	12	16	20	1.78
2418307--2418781	259	1.8	259	81	2	596	30	14	26	28	1.95
2418885--2418917	17	1.9	17	100	0	66	27	30	6	36	1.81
2419377--2419438	23	2.8	21	75	15	63	70	0	4	24	1.06
2420923--2421226	152	2.0	152	99	0	599	28	22	21	27	1.99
2422491--2422528	2	19.0	2	100	0	76	50	0	0	50	1.00
2431346--2431401	21	2.8	20	76	10	60	46	0	0	53	1.00
2431642--2431685	23	2.0	21	86	8	61	38	0	0	61	0.96
2431642--2431685	21	2.0	23	83	16	58	38	0	0	61	0.96
2436344--2436404	20	2.9	21	76	13	63	54	0	0	45	1.00
2436356--2436394	19	2.1	19	85	9	53	58	0	0	41	0.98
2436947--2436982	2	18.0	2	88	0	54	0	44	2	52	1.15
2438874--2438909	18	2.0	18	100	0	72	44	16	0	38	1.48
2440952--2440985	2	17.0	2	88	11	52	0	47	2	50	1.16
2440952--2440983	17	1.9	16	93	6	55	0	46	3	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2461047--2461305	143	1.8	142	87	0	383	32	10	14	42	1.79
2461864--2461913	24	2.1	23	85	10	66	48	0	0	52	1.00
2461863--2461905	12	3.6	12	78	9	52	53	0	0	46	1.00
2462231--2462284	18	2.9	18	83	2	63	48	1	0	50	1.11
2463716--2463754	18	2.2	18	86	9	53	48	0	0	51	1.00
2464055--2464085	16	1.9	16	93	0	53	29	0	0	70	0.87
2464862--2464907	25	1.9	23	86	8	65	52	0	0	47	1.00
2466055--2466093	12	3.0	13	85	11	53	74	0	0	25	0.82
2467266--2467321	18	3.3	18	70	27	59	55	0	0	44	0.99
2467248--2467329	32	2.5	32	88	5	112	58	0	0	41	0.98
2467266--2467324	17	3.5	17	73	26	54	57	0	0	42	0.98
2468923--2468970	19	2.5	19	83	12	55	41	4	2	52	1.32
2472931--2472963	17	2.0	17	94	5	59	36	0	0	63	0.95
2472947--2473002	24	2.3	25	82	11	71	41	0	0	58	0.98
2473354--2473408	20	2.9	19	71	7	51	67	0	0	32	0.91
2473385--2473504	24	4.7	24	72	19	75	56	0	0	41	1.11
2473365--2473504	18	7.4	19	67	24	82	57	0	0	40	1.09
2473419--2473491	32	2.2	34	85	4	96	53	1	0	45	1.09
2473433--2473510	27	2.9	28	81	11	99	57	0	0	42	0.98
2473464--2473516	27	2.0	27	85	7	72	54	3	0	41	1.18
2475286--2475338	15	3.5	15	76	14	56	49	0	0	50	1.00
2477632--2477673	14	3.0	14	89	0	57	35	4	0	59	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2478019--2478102	21	3.9	21	72	18	66	64	1	1	33	1.09
2479148--2479209	16	3.8	17	76	19	53	53	0	0	46	1.00
2479169--2479221	16	3.3	16	77	15	56	49	0	0	50	1.00
2479169--2479222	15	3.4	15	78	14	54	50	0	0	50	1.00
2479146--2479221	33	2.2	36	88	9	115	50	0	0	50	1.00
2479146--2479223	17	4.6	17	75	12	70	50	0	0	50	1.00
2479197--2479260	23	2.8	24	81	11	73	35	1	0	62	1.05
2479209--2479260	24	2.2	24	86	10	72	32	1	0	65	1.04
2488514--2488549	4	9.0	4	100	0	72	50	0	0	50	1.00
2489846--2489888	2	21.5	2	100	0	86	51	48	0	0	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26