genome.fa.s13.2.7.7.80.10.50.1000.1.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  1  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)
82--3686	171	21.2	169	76	6	2568	34	13	12	39	1.83
82--3686	341	10.6	340	76	6	2745	34	13	12	39	1.83
3695--8292	171	26.7	170	68	9	1408	33	13	12	37	1.83
3695--5472	512	3.5	506	76	7	1328	34	14	13	37	1.85
4951--5407	169	2.7	170	79	4	420	33	16	13	36	1.88
6191--8245	849	2.4	849	78	7	2033	34	14	12	38	1.84
6148--14755	171	50.2	170	73	9	4992	34	14	12	38	1.84
10024--14755	686	6.9	681	76	8	3287	34	14	13	37	1.85
15394--15790	172	2.3	168	78	7	406	35	13	12	39	1.82
15418--16116	171	4.1	170	70	9	440	33	12	13	37	1.83
17280--17887	171	3.6	171	82	4	609	34	12	13	39	1.83
19458--19845	170	2.3	170	80	3	413	36	14	12	36	1.83
20149--24536	171	25.8	170	75	7	2972	38	12	13	34	1.83
20166--24536	512	8.6	511	76	6	2929	38	12	13	34	1.83
24073--25233	469	2.5	460	76	7	1003	40	11	12	33	1.79
25075--28031	171	17.4	170	72	6	1549	36	13	13	34	1.83
28208--28538	171	1.9	171	81	6	393	37	12	13	36	1.82
29076--32859	171	22.2	171	73	6	2348	37	12	13	34	1.83
30927--32645	514	3.3	512	77	5	1271	38	12	13	34	1.82
29146--32847	856	4.4	853	75	6	2065	37	12	13	34	1.82
28125--32846	342	14.0	339	72	9	2022	37	12	13	34	1.83
34459--48457	171	82.1	169	71	8	5621	37	12	13	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35824--36143	169	1.9	169	82	7	398	39	12	13	34	1.82
36740--37070	163	2.0	163	80	6	368	37	12	13	36	1.83
39439--42733	685	4.9	672	73	9	1345	37	13	13	33	1.84
49061--49500	172	2.6	172	78	6	414	40	11	14	33	1.82
54672--54805	29	4.6	29	78	6	119	41	11	13	34	1.80
54669--54836	28	5.7	29	78	10	146	41	10	11	36	1.76
54701--54825	59	2.1	58	85	10	166	40	11	11	36	1.77
58685--58725	18	2.3	18	91	0	64	39	26	9	24	1.86
59957--60077	38	3.1	39	85	8	167	44	26	14	14	1.83
61921--62036	55	2.1	57	82	6	139	43	12	9	34	1.74
64978--65076	46	2.2	46	90	1	155	31	14	41	13	1.83
66470--66520	26	2.0	26	92	0	84	0	13	5	80	0.89
69237--69308	28	2.6	28	93	4	121	54	4	1	40	1.28
69563--69611	25	1.9	26	87	4	73	42	0	0	57	0.99
69560--69618	25	2.3	26	72	16	61	47	0	0	52	1.00
73703--73748	23	2.0	23	87	8	67	34	30	15	19	1.93
78154--78283	69	1.9	69	85	6	183	33	25	10	30	1.89
78223--78392	80	2.1	80	83	2	216	34	24	10	31	1.88
79123--79289	84	2.0	84	85	0	226	52	11	10	25	1.68
79572--79660	29	3.0	29	75	9	81	60	3	2	33	1.25
82527--82623	39	2.7	37	76	10	94	54	10	8	26	1.62
87556--87668	25	4.5	25	73	4	102	33	11	13	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
87506--87643	51	2.7	51	87	0	186	34	13	11	39	1.81
88284--88321	19	2.0	19	89	0	58	52	0	26	21	1.47
89054--89097	2	22.0	2	100	0	88	50	0	0	50	1.00
92477--92507	7	4.4	7	95	0	53	58	0	9	32	1.31
101984--102158	90	2.0	90	82	1	217	27	12	16	44	1.83
102467--102525	18	3.2	19	69	13	52	64	1	13	20	1.37
104487--104551	30	2.2	30	91	5	105	29	13	9	47	1.74
104619--104683	33	2.0	33	87	0	94	44	10	10	33	1.74
107826--108538	251	2.9	246	78	6	621	49	5	8	33	1.57
109134--109745	47	13.2	47	78	8	547	27	16	29	25	1.97
109155--109744	92	6.4	92	80	7	595	27	16	29	25	1.97
109149--109745	139	4.3	140	79	6	617	27	16	29	25	1.97
109527--109605	24	3.4	23	70	5	70	24	15	30	30	1.95
109667--109745	23	3.4	23	72	16	81	26	20	32	20	1.97
109215--109789	185	3.1	182	78	10	607	27	16	29	26	1.97
109288--109844	139	4.0	137	77	10	384	27	16	29	26	1.97
110525--110944	31	13.6	31	83	0	455	21	19	21	38	1.94
110537--110924	93	4.2	93	86	0	535	20	19	21	38	1.93
110544--110897	185	1.9	185	92	0	591	20	19	21	38	1.93
114201--114243	22	2.0	22	100	0	86	13	27	34	23	1.93
114344--114796	250	1.8	253	87	2	689	35	8	6	49	1.60
114904--115755	247	3.4	249	78	2	841	34	10	4	48	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
115913--116032	63	1.9	63	84	0	159	25	28	12	34	1.92
135986--136030	24	2.0	22	86	8	63	48	0	4	46	1.22
141119--141198	40	2.0	40	90	0	124	28	17	17	36	1.93
144205--144255	16	3.1	16	91	2	75	64	0	35	0	0.94
144213--144280	16	4.5	16	82	10	72	64	0	33	1	1.02
159870--159919	8	6.4	8	81	4	66	0	36	2	62	1.07
159874--159919	15	3.0	15	87	6	65	0	36	2	60	1.09
160827--160866	19	2.2	18	90	4	62	52	0	0	47	1.00
170558--170603	23	2.0	23	83	8	58	28	4	0	67	1.10
184115--184153	17	2.2	18	86	9	53	56	5	0	38	1.22
185088--185155	26	2.7	24	77	18	68	60	2	0	36	1.12
196921--196983	28	2.2	28	75	13	67	61	0	1	36	1.05
235516--235549	2	17.0	2	93	0	59	50	0	2	47	1.16
238115--238157	21	2.0	21	91	8	70	48	2	0	48	1.14
256443--256468	8	3.2	8	100	0	52	30	0	34	34	1.58
262614--262646	2	16.5	2	100	0	66	51	0	48	0	1.00
269393--269422	10	3.0	10	95	0	51	56	0	0	43	0.99
272652--272686	2	18.5	2	88	11	56	51	0	0	48	1.00
273548--273598	6	8.2	6	82	8	57	78	1	19	0	0.85
273982--274038	22	2.7	20	76	15	60	64	0	24	10	1.24
279687--279718	3	10.7	3	93	0	55	0	31	0	68	0.90
279691--279730	18	2.2	18	86	0	53	2	32	0	65	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
284487--284512	3	8.7	3	100	0	52	65	0	0	34	0.93
285543--285594	26	2.0	26	84	3	68	40	0	1	57	1.10
285605--285642	16	2.2	18	90	9	62	34	0	0	65	0.93
285799--285898	22	4.8	20	67	18	69	45	4	0	51	1.20
285775--285833	27	2.1	28	81	3	66	37	5	1	55	1.32
285803--285898	42	2.3	43	81	5	115	43	4	0	52	1.20
285556--285981	154	2.7	154	77	7	439	38	1	2	55	1.24
285913--285980	27	2.4	27	82	7	82	32	0	1	66	1.01
285675--286422	287	2.6	293	78	5	728	39	4	3	51	1.38
286354--286414	27	2.2	28	85	5	79	37	1	0	60	1.07
286331--286490	78	2.0	78	82	7	189	33	3	3	59	1.31
302141--302168	6	4.7	6	100	0	56	85	0	0	14	0.59
315025--315053	2	14.5	2	100	0	58	51	0	48	0	1.00
320862--320902	3	13.7	3	100	0	82	34	0	0	65	0.93
332741--332765	12	2.1	12	100	0	50	60	16	16	8	1.58
338400--338438	20	2.0	19	85	14	53	51	5	43	0	1.24
343256--343286	16	1.9	16	93	0	53	25	12	0	61	1.32
344596--344704	54	2.0	54	98	0	209	34	16	20	28	1.94
344776--344835	25	2.3	26	80	11	68	65	0	1	33	1.03
348464--348517	6	8.8	6	83	4	72	77	0	0	22	0.76
349181--349211	2	15.5	2	100	0	62	51	0	48	0	1.00
357493--357608	41	2.8	40	77	6	117	48	2	6	43	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357571--357620	15	3.3	15	83	5	73	56	2	0	42	1.11
357574--357619	16	2.9	16	87	3	67	52	2	0	45	1.13
364556--364612	20	2.8	20	71	5	53	57	3	0	38	1.16
367659--367716	29	2.0	29	80	12	66	48	0	3	48	1.18
367828--367872	22	2.2	20	84	11	56	51	2	4	42	1.34
367841--367925	26	3.2	26	79	11	75	57	3	1	37	1.23
368245--368291	21	2.1	24	88	11	73	55	0	2	42	1.12
369268--369327	30	2.0	30	90	0	93	60	5	8	26	1.47
370349--370392	23	1.9	23	82	17	56	45	4	2	47	1.35
373078--373110	2	16.5	2	93	0	57	48	0	0	51	1.00

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