genome.fa.s13.2.7.7.80.10.50.1000.6.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_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7441454

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  6  of  18  ( 2072 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)
2310734--2310763	5	6.0	5	100	0	60	0	20	0	80	0.72
2312757--2312794	20	1.9	20	94	0	67	47	2	5	44	1.39
2317602--2317680	26	2.8	29	77	14	94	44	0	0	55	0.99
2317720--2317774	25	2.2	26	93	3	94	16	0	12	70	1.16
2322210--2322236	2	13.5	2	100	0	54	48	0	0	51	1.00
2323420--2323484	19	3.4	18	77	6	58	66	1	4	27	1.20
2323420--2323475	19	3.1	19	84	5	62	66	0	5	28	1.14
2325729--2325842	55	2.1	56	91	1	185	25	24	5	44	1.74
2331178--2331203	9	2.9	9	100	0	52	19	11	34	34	1.88
2352255--2352443	81	2.3	81	87	0	270	39	8	8	42	1.67
2352841--2352896	29	1.9	29	82	7	69	42	10	21	25	1.85
2352839--2353186	179	1.9	178	89	0	534	37	12	21	29	1.90
2354929--2355181	78	3.2	80	85	6	313	41	9	8	40	1.67
2356085--2356241	72	2.2	72	80	1	170	31	24	15	28	1.95
2358355--2358487	71	1.9	72	84	4	180	41	11	15	32	1.82
2359175--2359240	21	3.1	21	80	0	69	30	7	15	46	1.73
2359355--2359410	22	2.6	21	86	5	76	25	1	19	53	1.55
2363183--2363211	15	1.9	15	100	0	58	68	6	3	20	1.27
2366060--2366093	1	34.0	1	93	0	59	0	0	97	2	0.19
2375780--2375816	18	2.1	18	90	10	58	45	2	0	51	1.15
2375896--2375960	25	2.6	25	74	11	62	55	0	0	44	0.99
2377590--2377623	17	2.0	17	88	0	50	29	0	5	64	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2378073--2378101	12	2.4	12	100	0	58	13	0	0	86	0.58
2396387--2396418	2	16.0	2	100	0	64	50	0	0	50	1.00
2401591--2401653	33	1.9	32	87	3	90	49	7	7	34	1.61
2408599--2408666	27	2.6	27	83	2	84	26	7	8	57	1.55
2409145--2409200	29	2.0	28	92	3	94	37	14	8	39	1.77
2415296--2415382	34	2.6	34	80	5	88	29	4	0	65	1.12
2415364--2415419	28	1.9	29	89	7	87	33	3	0	62	1.12
2415332--2415448	47	2.5	45	74	17	105	31	1	0	66	1.02
2415360--2415468	53	2.1	52	81	13	125	31	1	0	66	1.09
2415430--2415483	26	2.0	28	85	7	76	38	0	1	59	1.08
2424183--2424228	2	23.0	2	100	0	92	50	0	0	50	1.00
2428788--2428812	2	12.5	2	100	0	50	52	0	48	0	1.00
2431092--2431129	11	3.5	11	96	0	67	47	7	7	36	1.62
2433309--2433359	10	4.8	11	86	11	63	82	0	17	0	0.67
2433317--2433356	18	2.2	19	95	4	73	85	0	15	0	0.61
2433831--2433865	10	3.3	10	92	8	52	85	2	11	0	0.69
2441007--2441437	216	2.0	217	91	0	693	35	16	16	31	1.91
2445542--2445628	27	3.1	28	75	17	76	51	0	0	48	1.00
2445543--2445597	28	2.0	28	83	13	71	56	0	0	43	0.99
2445592--2445631	16	2.6	15	84	4	53	45	0	0	55	0.99
2447198--2447909	354	2.0	355	88	2	1074	38	12	12	36	1.81
2452472--2452504	16	2.1	16	100	0	66	18	12	0	69	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2452474--2452511	16	2.3	16	90	4	58	23	7	0	68	1.16
2463643--2463667	13	1.9	13	100	0	50	48	0	0	52	1.00
2463668--2463703	2	18.5	2	94	5	65	52	0	47	0	1.00
2465503--2465561	30	1.9	31	82	3	75	44	10	13	32	1.77
2465584--2465629	20	2.3	20	88	7	67	67	0	0	32	0.91
2465585--2465629	21	2.2	20	88	4	63	68	0	0	31	0.89
2465612--2465640	11	2.6	11	100	0	58	58	0	0	41	0.98
2466699--2466752	27	2.0	27	85	3	72	75	0	22	1	0.89
2470071--2470109	2	19.5	2	89	0	60	43	0	5	51	1.24
2470169--2470278	52	2.1	53	84	5	143	28	20	20	30	1.97
2472289--2472424	68	2.0	68	88	2	202	44	8	23	23	1.79
2473111--2473144	17	2.0	17	88	0	50	55	5	8	29	1.54
2474649--2474687	2	19.5	2	86	0	51	0	46	2	51	1.14
2480739--2480779	15	2.7	15	100	0	82	39	7	4	48	1.52
2483259--2483292	17	2.0	17	88	0	50	0	2	11	85	0.71
2484113--2484143	16	1.9	16	93	0	53	70	3	3	22	1.16
2495768--2495911	77	1.9	77	85	2	200	49	12	17	20	1.79
2500251--2500280	13	2.3	13	94	0	51	66	0	0	33	0.92
2500479--2500520	17	2.6	17	77	7	52	57	4	2	35	1.33
2502857--2502882	6	4.3	6	100	0	52	0	15	30	53	1.42
2505723--2505758	18	2.1	18	89	5	56	41	8	47	2	1.48
2511661--2511698	2	19.0	2	100	0	76	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2526788--2526852	29	2.2	31	88	5	98	61	1	6	30	1.29
2528630--2528664	6	5.8	6	93	0	61	82	0	17	0	0.66
2546008--2546051	13	3.7	12	79	8	54	36	2	2	59	1.23
2546910--2546972	33	1.9	33	87	9	94	68	1	3	26	1.14
2547006--2547093	34	2.6	33	85	5	113	64	0	6	28	1.19
2547318--2547352	15	2.3	15	90	0	61	40	14	5	40	1.69
2550267--2550293	12	2.2	12	100	0	54	51	25	14	7	1.68
2557553--2557580	2	14.0	2	100	0	56	50	0	0	50	1.00
2559351--2559409	2	29.5	2	100	0	118	49	0	0	50	1.00
2559458--2559492	17	2.1	17	94	0	61	40	0	0	60	0.97
2559583--2559621	17	2.3	17	86	8	53	2	25	0	71	0.98
2559607--2559645	19	2.1	19	85	0	51	10	10	0	79	0.94
2559613--2559652	13	3.0	13	86	13	55	12	5	0	82	0.82
2559615--2559652	19	2.0	19	89	0	58	13	2	0	84	0.73
2568071--2568236	78	2.2	77	85	3	235	53	5	6	34	1.50
2578588--2578693	54	1.9	56	87	11	157	65	1	3	29	1.21
2578666--2578748	33	2.5	33	86	3	105	71	0	2	26	0.99
2578762--2578802	13	2.7	16	82	17	52	63	0	0	36	0.95
2580810--2580854	22	2.1	21	83	4	54	17	15	20	46	1.84
2582885--2582980	47	2.0	47	100	0	192	36	12	25	26	1.91
2589509--2589535	3	9.0	3	100	0	54	66	0	0	33	0.92
2589805--2589836	14	2.4	14	90	10	50	78	12	6	3	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2589840--2589888	3	16.7	3	76	19	50	65	0	4	30	1.11
2589850--2589884	17	2.1	17	89	10	54	62	0	2	34	1.10
2592517--2592585	29	2.4	29	82	4	86	14	26	14	44	1.83
2596661--2596722	30	2.1	30	93	0	106	27	19	24	29	1.98
2603985--2604057	25	2.9	25	89	0	119	24	23	17	34	1.96
2604376--2604548	81	2.2	80	82	5	208	38	9	10	42	1.71
2617109--2617164	15	3.7	15	82	0	67	35	7	21	35	1.81
2617109--2617167	30	2.0	30	86	0	82	37	6	20	35	1.79
2617381--2617466	33	2.6	33	84	1	109	30	2	0	67	1.03
2617368--2617435	33	2.2	30	80	12	75	26	4	1	67	1.18
2617481--2617554	25	3.0	25	76	13	73	31	1	0	67	0.99
2617440--2617545	55	1.9	57	88	9	166	32	2	0	65	1.07
2625953--2625988	2	18.0	2	100	0	72	50	0	0	50	1.00
2626945--2626991	19	2.5	19	96	0	85	38	34	0	27	1.57
2626945--2626998	19	2.8	19	84	15	76	37	37	0	25	1.57
2627171--2627239	34	2.0	34	86	5	95	60	15	0	23	1.35
2635854--2635936	25	3.3	26	67	16	75	37	14	10	37	1.81
2636044--2636177	53	2.5	53	80	3	142	30	11	14	42	1.82
2648550--2648575	2	13.0	2	100	0	52	50	0	0	50	1.00
2650776--2650809	2	17.0	2	100	0	68	50	0	0	50	1.00
2657358--2657383	2	13.0	2	100	0	52	0	0	50	50	1.00
2663894--2663986	35	2.7	35	88	3	125	52	19	6	21	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2663924--2664011	35	2.6	34	83	1	86	48	22	6	21	1.73
2665156--2665209	22	2.3	24	78	9	58	29	0	5	64	1.16
2670096--2670131	9	3.9	9	88	3	54	66	0	0	33	0.92
2674193--2674218	6	4.3	6	100	0	52	50	15	34	0	1.45
2690657--2690694	14	2.6	14	88	12	51	84	5	0	10	0.77
2691723--2691764	4	10.0	4	80	19	50	76	0	0	23	0.79
2691724--2691764	17	2.4	17	92	8	66	78	0	0	21	0.76
2691723--2691772	13	3.9	12	80	12	55	76	0	2	22	0.89
2702484--2702514	2	15.5	2	100	0	62	48	0	0	51	1.00
2703672--2703708	4	9.2	4	100	0	74	24	0	24	51	1.49

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18