genome.fa.s1.2.7.7.80.10.50.1000.5.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_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15579451

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   27   28   29   30   31   32   

This is table  5  of  32  ( 3821 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)
2129021--2129073	23	2.4	22	83	3	61	60	5	3	30	1.37
2129045--2129086	19	2.5	17	85	14	52	59	4	0	35	1.19
2134911--2134943	14	2.3	15	94	5	59	0	36	3	60	1.12
2136477--2136514	18	2.1	18	90	9	60	65	21	2	10	1.35
2136756--2136788	11	2.8	12	86	13	50	33	0	0	66	0.92
2145086--2145145	22	2.7	22	78	0	66	50	15	6	28	1.69
2145761--2145819	28	2.1	29	87	3	84	66	1	0	32	1.02
2149318--2149343	6	4.3	6	100	0	52	19	34	0	46	1.50
2173454--2173492	16	2.4	16	86	0	51	15	15	7	61	1.55
2181851--2181961	60	1.9	57	87	5	159	50	4	4	40	1.43
2210260--2210301	19	2.2	20	86	4	59	71	7	19	2	1.20
2211198--2211222	2	12.5	2	100	0	50	52	0	0	48	1.00
2215695--2215841	74	2.0	74	100	0	294	32	15	9	42	1.79
2239863--2239887	3	8.3	3	100	0	50	32	0	0	68	0.90
2242185--2242215	3	10.3	3	100	0	62	67	0	0	32	0.91
2242993--2243039	15	3.1	15	90	0	76	29	6	31	31	1.83
2243235--2243315	28	2.9	27	77	18	87	34	1	0	64	1.02
2243250--2243306	20	2.7	21	89	8	89	33	0	0	66	0.92
2243247--2243314	26	2.6	27	82	15	88	33	0	0	66	0.92
2243247--2243520	26	10.4	28	64	26	79	34	1	0	63	1.09
2243352--2243527	30	5.8	30	67	20	89	35	0	0	63	1.03
2243346--2243938	28	20.7	30	63	25	134	35	2	0	62	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2243391--2243809	61	6.9	60	67	22	159	35	2	0	61	1.14
2243192--2244301	105	10.9	103	81	15	1180	35	2	0	61	1.15
2243458--2243515	22	2.6	23	78	13	68	34	0	0	65	0.93
2243545--2244238	77	9.1	76	67	23	276	35	2	0	61	1.15
2243653--2243717	9	6.7	10	69	23	50	32	0	0	67	0.91
2243675--2244316	198	3.3	186	75	19	632	35	2	0	61	1.15
2243899--2244280	46	7.9	45	67	23	167	35	2	0	60	1.16
2243944--2244076	31	4.2	31	69	16	78	37	2	0	59	1.15
2244068--2244124	9	6.1	10	72	13	50	29	0	0	70	0.88
2243907--2244199	91	3.2	89	78	16	278	35	2	0	61	1.14
2244102--2244280	54	3.4	53	72	19	178	34	3	1	60	1.20
2244142--2244198	30	1.9	30	85	0	78	28	1	1	68	1.09
2244163--2244223	21	3.1	18	76	19	59	34	0	0	65	0.93
2244075--2244336	106	2.4	108	85	12	337	33	2	0	62	1.14
2244262--2244298	9	3.8	10	86	13	51	29	0	0	70	0.88
2244262--2244339	20	4.0	20	75	12	81	28	1	0	70	0.95
2243681--2244335	293	2.3	286	83	12	788	34	2	0	61	1.15
2244317--2244420	50	2.1	48	82	12	122	30	2	1	64	1.19
2244075--2244393	106	3.0	110	79	15	273	33	2	0	62	1.16
2261165--2261217	24	2.2	25	90	10	83	39	0	0	60	0.97
2261169--2261227	29	2.0	29	83	0	73	38	0	0	61	0.96
2286691--2286818	64	2.0	63	96	3	240	35	6	14	43	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2287250--2287313	32	2.0	33	84	9	87	54	4	6	34	1.46
2294795--2294824	13	2.2	14	94	5	53	80	0	20	0	0.72
2316579--2316605	3	9.0	3	100	0	54	0	33	0	66	0.92
2324343--2324379	17	2.2	17	90	4	58	48	0	0	51	1.00
2348667--2348725	31	1.9	31	89	0	91	28	16	5	49	1.67
2348890--2348914	2	12.5	2	100	0	50	48	0	0	52	1.00
2351664--2351689	2	13.0	2	100	0	52	0	50	0	50	1.00
2354870--2355010	74	1.9	74	86	2	203	34	21	11	32	1.89
2355678--2355720	12	3.7	12	78	6	52	48	0	0	51	1.00
2355714--2355767	24	2.2	26	86	6	76	29	0	1	68	1.00
2355721--2355764	20	2.2	20	84	8	54	31	0	2	65	1.05
2355732--2355770	20	2.0	20	95	5	71	28	0	0	71	0.86
2357752--2357907	45	3.4	45	69	3	116	35	15	11	37	1.84
2362137--2362204	24	2.8	25	78	13	70	47	4	5	42	1.48
2372202--2372260	27	2.2	27	87	0	82	23	30	16	28	1.97
2372209--2372290	27	3.0	27	87	0	101	20	35	17	26	1.95
2385251--2385400	74	2.0	74	98	0	291	26	10	24	38	1.88
2395169--2395194	13	2.0	13	100	0	52	46	7	7	38	1.61
2398343--2398390	2	25.5	2	87	12	75	50	0	0	50	1.00
2404108--2404141	13	2.5	14	85	9	52	76	0	23	0	0.79
2407316--2407369	20	2.7	20	78	16	67	50	0	0	50	1.00
2413180--2413219	21	1.9	21	90	10	64	42	12	35	10	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2416380--2416411	2	16.0	2	100	0	64	50	0	50	0	1.00
2421105--2421137	2	16.5	2	93	0	57	48	0	51	0	1.00
2428990--2429044	15	3.7	15	87	0	74	45	12	16	25	1.83
2435662--2435751	46	1.9	47	86	10	132	42	11	7	38	1.69
2442205--2442267	22	2.9	22	75	13	67	46	3	0	50	1.17
2443070--2443105	18	1.9	19	88	5	56	47	5	5	41	1.50
2457701--2457731	10	2.9	11	90	9	55	83	0	0	16	0.64
2460441--2460473	2	16.5	2	100	0	66	0	48	0	51	1.00
2462245--2462288	3	14.7	3	85	0	61	65	2	2	29	1.16
2465148--2465185	20	1.9	20	88	0	58	39	2	2	55	1.28
2465149--2465192	20	2.2	20	83	0	52	45	2	2	50	1.27
2499262--2499287	2	13.0	2	100	0	52	50	0	0	50	1.00
2509665--2509693	2	14.5	2	100	0	58	48	0	0	51	1.00
2515024--2515095	26	2.8	26	95	0	126	22	31	26	19	1.97
2530456--2530486	2	15.5	2	100	0	62	51	0	0	48	1.00
2545519--2545591	28	2.5	29	76	10	78	52	2	4	41	1.35
2545579--2545634	11	5.1	12	74	26	61	42	0	0	57	0.99
2545588--2545626	20	2.0	20	95	5	71	46	0	0	53	1.00
2550127--2550187	25	2.5	25	76	7	63	50	0	11	37	1.39
2550758--2550791	15	2.2	16	89	5	52	35	0	2	61	1.11
2550710--2550781	22	3.1	22	69	26	60	43	0	2	54	1.15
2550710--2550799	47	2.0	45	84	8	119	40	0	2	57	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2551011--2551057	19	2.4	19	83	13	60	34	0	12	53	1.39
2551048--2551105	24	2.4	24	88	5	91	31	0	5	63	1.16
2551048--2551123	20	3.6	20	74	19	57	31	0	3	64	1.12
2553862--2553936	33	2.3	32	84	6	89	58	2	2	36	1.26
2560678--2560755	39	2.0	39	100	0	156	33	10	17	38	1.84
2564012--2564039	14	2.0	14	100	0	56	14	21	14	50	1.78
2564361--2564421	30	2.1	29	90	3	95	19	19	26	34	1.96
2582899--2582931	12	2.5	13	90	9	50	48	0	0	51	1.00
2583248--2583282	16	2.2	16	90	5	54	40	0	0	60	0.97
2583229--2583274	21	2.2	21	84	0	56	26	0	4	69	1.07
2583494--2583550	14	4.1	13	77	18	53	42	0	0	57	0.98
2583486--2583541	28	2.0	29	86	10	80	39	1	0	58	1.08
2583504--2583551	21	2.3	22	86	13	66	43	0	0	56	0.99
2583517--2583576	20	3.0	20	85	7	68	55	0	0	45	0.99
2594970--2595055	29	2.8	29	80	7	73	33	12	13	39	1.83
2594985--2595055	33	2.3	29	85	9	88	35	14	12	38	1.84
2595070--2595146	25	3.0	24	67	26	57	33	6	11	48	1.66
2595066--2595157	24	3.6	24	72	16	85	33	8	14	43	1.76
2595213--2595312	38	2.6	38	85	6	139	26	13	23	38	1.91
2595318--2595438	42	2.8	42	81	3	125	32	15	15	36	1.90
2595450--2595517	24	3.0	24	75	16	72	38	11	10	39	1.76
2596491--2596559	27	2.5	27	75	13	70	44	4	1	49	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2596671--2596715	15	3.1	15	76	23	51	35	0	4	60	1.17
2596661--2596715	29	1.9	28	85	10	76	36	0	5	58	1.21
2600688--2600816	27	4.7	28	76	11	122	41	10	7	40	1.67
2600688--2600900	55	3.9	52	77	13	175	43	10	7	38	1.68
2600687--2600867	27	6.6	27	75	5	112	42	9	8	39	1.67
2600743--2600868	27	4.6	28	76	4	121	42	7	7	42	1.61
2603170--2603217	14	3.4	14	80	5	51	58	0	2	39	1.10
2603382--2603430	6	8.0	6	79	2	53	2	32	18	46	1.60
2602882--2603894	539	1.9	538	88	4	1556	36	12	12	39	1.80
2604251--2604283	15	2.3	15	89	5	50	78	3	0	18	0.87

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   27   28   29   30   31   32