genome.fa.s16.2.7.7.80.10.50.1000.7.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: NW_018397269.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5666189

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

This is table  7  of  14  ( 1598 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)
2507153--2507212	8	8.1	7	80	12	59	73	1	0	25	0.93
2508117--2508198	22	3.5	22	81	18	110	45	14	3	36	1.63
2508122--2508178	28	2.0	28	100	0	114	42	14	3	40	1.62
2508121--2508202	28	3.1	28	76	20	113	41	15	3	39	1.65
2515017--2515266	132	1.9	132	85	3	351	42	7	20	30	1.78
2518581--2518618	15	2.5	15	87	8	51	39	2	0	57	1.12
2519988--2520074	44	2.0	44	81	4	104	22	6	28	41	1.80
2520051--2520171	22	5.4	22	68	8	57	22	12	25	39	1.89
2523636--2523661	13	2.0	13	100	0	52	46	23	7	23	1.78
2525512--2525562	27	1.9	27	88	4	77	64	0	13	21	1.28
2526592--2526627	18	1.9	19	88	5	56	69	0	8	22	1.15
2526665--2526697	14	2.2	16	89	10	52	60	0	3	36	1.12
2532803--2532838	16	2.3	16	90	4	56	41	8	5	44	1.58
2536133--2536169	2	18.5	2	100	0	74	51	0	0	48	1.00
2537010--2537048	17	2.4	16	86	4	51	69	5	7	17	1.32
2537781--2537823	21	2.0	21	100	0	86	0	27	23	48	1.51
2537785--2537830	21	2.2	21	88	0	65	2	32	19	45	1.62
2537976--2538002	12	2.2	12	100	0	54	48	0	0	51	1.00
2539322--2539365	22	2.0	22	81	0	52	25	13	18	43	1.86
2540558--2540638	42	1.9	42	84	0	108	30	13	20	34	1.92
2540631--2540702	35	2.1	34	94	2	126	26	29	16	27	1.97
2543466--2543504	20	1.9	21	94	5	71	71	12	0	15	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2544355--2544396	2	20.5	2	95	4	75	47	2	0	50	1.14
2579125--2579152	11	2.5	11	100	0	56	42	21	10	25	1.85
2579371--2579411	21	2.1	19	86	9	55	29	0	9	60	1.28
2584066--2584096	2	15.5	2	100	0	62	51	0	0	48	1.00
2585066--2585482	150	2.8	150	89	3	612	41	14	10	33	1.80
2585850--2585881	2	16.0	2	100	0	64	50	0	0	50	1.00
2586582--2586609	2	14.0	2	100	0	56	50	0	0	50	1.00
2590184--2590277	40	2.3	40	83	7	109	40	2	2	55	1.24
2590824--2590861	18	2.1	19	85	9	53	63	0	2	34	1.09
2597152--2597180	2	14.5	2	100	0	58	51	48	0	0	1.00
2606876--2606920	23	2.0	23	82	8	56	66	0	6	26	1.16
2611372--2611411	19	2.1	19	85	4	53	65	7	5	22	1.38
2616485--2616543	28	2.1	28	87	6	84	30	1	0	67	1.00
2619748--2619793	16	3.1	16	69	18	53	45	13	10	30	1.77
2620478--2620507	2	15.0	2	100	0	60	0	50	0	50	1.00
2621935--2622013	30	2.7	30	74	2	88	50	3	2	43	1.33
2633722--2633748	3	9.0	3	100	0	54	66	0	0	33	0.92
2637993--2638074	41	2.0	40	81	6	94	29	20	9	40	1.85
2643630--2643682	26	2.1	25	89	3	79	60	1	7	30	1.35
2647911--2647970	23	2.6	23	80	12	68	40	3	1	55	1.27
2648742--2648802	21	2.9	21	77	0	77	34	24	11	29	1.91
2650223--2650277	26	2.0	28	86	6	78	38	3	1	56	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2667683--2667767	43	2.0	43	97	0	161	27	11	22	38	1.89
2672247--2672294	24	2.0	24	100	0	96	37	4	12	45	1.61
2672365--2672393	14	2.0	15	93	6	51	24	0	6	68	1.13
2677034--2677068	2	17.5	2	93	0	61	51	0	0	48	1.00
2677148--2677194	23	2.0	23	100	0	94	42	23	12	21	1.87
2679186--2679229	21	2.1	21	86	0	61	34	15	6	43	1.74
2683791--2683815	9	2.8	9	100	0	50	44	0	8	48	1.32
2685662--2685688	14	1.9	14	100	0	54	40	22	7	29	1.81
2696085--2696393	61	5.0	61	80	4	370	23	38	20	17	1.93
2696271--2696312	22	1.9	22	100	0	84	16	45	23	14	1.84
2696075--2696407	123	2.7	122	85	4	413	23	38	20	17	1.93
2696773--2696812	22	1.9	22	85	10	57	42	5	7	45	1.54
2697186--2697312	32	4.0	32	72	6	132	37	15	10	36	1.82
2697480--2700376	241	12.0	240	82	3	3000	44	7	12	32	1.70
2697480--2700371	724	4.0	721	82	3	3148	44	7	12	32	1.70
2705347--2705380	16	2.1	16	88	0	50	67	17	5	8	1.37
2711397--2711428	7	4.4	7	96	4	55	68	28	0	3	1.04
2713163--2713187	13	1.9	13	100	0	50	68	0	0	32	0.90
2713250--2713298	21	2.3	22	96	3	91	51	0	0	48	1.00
2713284--2713328	19	2.4	19	84	0	54	46	2	2	48	1.26
2713398--2713563	81	2.1	81	86	1	235	50	7	1	40	1.41
2715183--2715209	2	13.5	2	100	0	54	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2715514--2715538	12	2.1	12	100	0	50	16	24	24	36	1.94
2716625--2716658	18	1.9	18	88	5	52	82	0	11	5	0.83
2720545--2720605	32	1.9	32	100	0	122	29	18	9	42	1.82
2722742--2723140	105	3.8	105	89	0	600	23	21	16	38	1.92
2730724--2731777	349	3.0	351	90	1	1648	37	11	25	24	1.90
2737020--2737105	43	2.0	43	97	0	163	41	15	13	29	1.85
2744860--2744899	21	1.9	21	94	0	71	15	22	10	52	1.71
2744941--2744994	22	2.5	21	79	8	63	35	16	12	35	1.87
2751530--2751554	2	12.5	2	100	0	50	52	48	0	0	1.00
2751860--2751906	22	2.3	22	89	10	73	31	23	12	31	1.92
2766812--2766841	2	15.0	2	100	0	60	0	0	50	50	1.00
2772951--2772979	2	14.5	2	100	0	58	48	0	0	51	1.00
2776185--2776218	17	2.0	17	94	0	59	50	0	0	50	1.00
2776171--2776248	22	3.5	22	70	19	70	47	1	0	51	1.09
2789005--2789070	32	2.1	32	97	0	123	19	6	30	43	1.75
2800073--2800247	92	1.9	92	83	0	224	46	13	14	26	1.81
2800584--2800659	41	1.9	41	89	7	122	32	13	3	50	1.60
2801346--2801395	26	1.9	26	84	8	66	44	12	14	30	1.81
2801340--2801402	26	2.4	26	78	5	65	49	11	11	28	1.72
2801372--2801479	52	2.0	53	83	5	137	41	16	11	30	1.83
2803957--2804017	16	3.8	16	75	2	50	49	4	8	37	1.54
2817391--2817415	3	8.3	3	100	0	50	64	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2823453--2823484	5	6.8	5	96	3	50	0	12	0	87	0.54
2824518--2824979	154	3.0	154	90	3	707	33	15	10	40	1.82
2851316--2851361	24	2.0	23	83	12	58	28	15	13	43	1.83
2851701--2851815	40	2.9	38	76	13	108	34	26	6	32	1.83
2852807--2852849	21	2.1	20	83	12	52	27	18	13	39	1.89
2867747--2867807	30	2.0	30	87	0	86	32	8	8	50	1.62
2875817--2875851	6	5.8	6	100	0	70	65	0	0	34	0.93
2875813--2875853	12	3.4	12	93	0	64	63	0	0	36	0.95
2880185--2880214	12	2.5	12	88	0	51	56	0	0	43	0.99
2882225--2882258	10	3.4	10	87	0	50	29	41	20	8	1.82
2886739--2886780	21	2.0	21	85	0	57	30	14	9	45	1.77
2890609--2890647	17	2.3	17	86	0	51	7	7	25	58	1.52
2893736--2893782	24	2.0	24	82	0	58	55	0	2	42	1.12
2893829--2893862	17	2.0	17	88	0	50	44	14	14	26	1.84
2897829--2897904	33	2.3	32	84	6	98	27	39	10	22	1.87
2898092--2898136	23	1.9	24	86	4	65	46	8	2	42	1.47
2911192--2911308	59	2.0	59	98	0	225	31	4	13	50	1.61
2914755--2914831	31	2.5	31	75	12	77	53	6	5	35	1.49
2914821--2914863	10	4.3	10	79	8	52	51	0	0	48	1.00
2915609--2915736	15	8.9	15	66	14	58	29	2	0	67	1.09
2915609--2915691	34	2.6	34	83	11	95	30	2	0	67	1.03
2915682--2915775	5	18.4	5	71	10	57	28	2	1	68	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2915670--2915778	29	3.9	28	70	17	93	29	1	0	67	1.07
2915637--2915778	40	3.5	41	75	15	141	29	2	0	67	1.07
2916031--2916083	27	1.9	28	88	3	81	41	1	11	45	1.51
2916195--2916240	23	2.0	23	82	4	56	58	0	0	41	0.98
2926610--2926671	33	1.9	33	87	9	92	37	8	3	51	1.48
2926708--2926756	24	2.0	26	84	8	66	42	4	0	53	1.20
2929649--2929704	28	2.0	28	92	0	94	30	7	23	39	1.81
2930218--2930311	46	2.0	48	89	4	147	24	13	20	41	1.88
2935459--2935497	18	2.1	19	95	4	71	25	15	10	48	1.76
2935805--2935845	19	2.2	19	95	0	73	31	17	9	41	1.82

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