genome.fa.s9576.2.7.7.80.10.50.1000.1.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: VEPZ01009576.1 Hibiscus syriacus cultivar Beakdansim tig00116944_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1684752

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  1  of  10  ( 1108 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)
3814--3843	16	1.9	16	93	6	53	20	6	0	73	1.05
6898--7044	72	2.0	72	94	0	258	23	14	21	40	1.91
7018--7074	28	2.0	28	86	0	78	31	14	21	33	1.92
11110--11138	14	2.1	14	100	0	58	51	0	6	41	1.28
12083--12115	17	1.9	17	93	0	57	42	6	3	48	1.43
14974--15017	7	6.4	7	86	2	54	40	2	9	47	1.48
14974--15022	14	3.5	13	81	8	53	40	2	8	48	1.44
15108--15139	15	2.1	16	94	5	57	43	0	0	56	0.99
15269--15318	25	2.0	24	81	11	57	48	4	0	48	1.20
15445--15544	50	2.0	51	86	2	139	15	33	30	22	1.94
15467--15565	50	2.0	50	86	4	137	15	31	30	23	1.95
19130--19216	35	2.5	34	80	12	97	55	10	6	27	1.59
19428--19484	12	5.0	12	77	12	57	19	33	15	31	1.93
19440--19486	21	2.2	21	92	0	76	17	34	17	31	1.92
21369--21590	111	2.0	111	96	0	408	45	11	8	35	1.70
21713--21753	10	4.1	10	90	0	64	36	0	29	34	1.58
21875--22000	50	2.5	51	81	7	152	24	26	33	15	1.95
22843--22909	29	2.3	29	84	0	89	41	5	2	49	1.42
25227--25266	21	1.9	21	84	0	53	35	17	7	40	1.78
37980--38004	2	12.5	2	100	0	50	52	0	0	48	1.00
38076--38117	13	3.2	13	86	0	57	33	19	21	26	1.97
38106--38162	26	2.2	26	96	0	105	33	24	15	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42232--42325	49	1.9	49	97	0	179	48	8	2	40	1.45
42544--42574	16	1.9	16	100	0	62	45	0	3	51	1.17
44658--44683	4	6.5	4	100	0	52	76	0	0	23	0.78
46251--46347	39	2.5	39	90	5	151	22	22	8	46	1.78
46253--46316	17	3.5	17	71	19	56	20	23	6	50	1.71
46511--46569	21	3.0	21	67	23	54	23	20	8	47	1.77
47013--47228	101	2.1	100	82	5	247	40	11	18	30	1.85
49195--49327	6	22.7	6	71	24	90	2	14	0	83	0.74
49195--49327	16	8.7	15	73	23	91	2	14	0	83	0.74
49200--49327	23	5.3	23	75	20	104	2	14	0	83	0.74
49195--49307	1	113.0	1	73	0	73	1	13	0	84	0.69
50730--50936	75	2.7	76	86	2	283	24	31	23	20	1.98
55099--55148	23	2.0	26	85	11	70	52	0	2	46	1.12
56347--56380	17	2.0	17	94	0	59	73	5	2	17	1.16
57271--57904	112	5.6	112	86	1	867	29	19	13	37	1.89
57271--57905	225	2.8	224	90	1	966	29	19	13	37	1.90
57271--57904	337	1.9	338	88	1	957	29	19	13	37	1.89
58339--58393	22	2.5	22	87	0	83	36	14	14	34	1.87
61000--61225	84	2.7	84	90	4	359	38	21	12	27	1.89
70106--70139	17	2.0	17	94	0	59	73	5	2	17	1.16
72475--72536	24	3.0	20	86	11	72	20	37	25	16	1.93
72496--72557	24	2.7	22	82	9	63	22	38	24	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
74482--74521	15	2.7	15	96	0	71	15	0	27	57	1.38
74482--74522	7	5.6	7	83	11	55	14	0	26	58	1.37
75099--75306	76	2.7	77	87	2	278	24	32	23	19	1.97
76357--76400	21	2.0	22	87	12	65	65	0	11	22	1.24
77896--77930	6	5.8	6	96	0	61	51	28	17	2	1.59
80868--80958	42	2.1	44	82	15	111	61	5	10	21	1.49
81199--81227	4	7.2	4	100	0	58	75	0	0	24	0.80
86535--86576	11	3.8	11	75	12	50	50	9	0	40	1.35
86513--86576	33	1.9	33	84	6	85	51	7	0	40	1.31
88790--88822	4	8.2	4	93	0	57	27	0	0	72	0.85
90212--90240	12	2.4	12	100	0	58	41	13	27	17	1.87
90305--90334	14	2.1	14	100	0	60	50	0	0	50	1.00
93498--93567	21	3.3	21	86	7	97	18	30	22	28	1.98
94077--94149	34	2.1	34	89	0	110	50	6	5	36	1.52
94342--94466	63	2.0	63	88	3	189	36	21	2	39	1.67
94358--94463	23	4.9	22	69	20	80	36	18	2	41	1.66
94598--95381	138	5.7	138	91	1	1232	33	23	21	22	1.98
100807--100833	14	1.9	14	100	0	54	77	0	7	14	0.97
100829--100881	14	3.7	14	76	2	52	64	1	5	28	1.27
101425--101455	16	1.9	16	100	0	62	51	25	9	12	1.70
101473--101537	24	2.7	24	92	0	103	29	23	26	21	1.99
103094--103207	7	16.3	7	74	0	66	24	0	28	45	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
103092--103152	21	2.9	21	82	0	77	22	0	29	47	1.52
103091--103207	35	3.3	35	79	2	128	24	0	29	44	1.60
103278--103339	25	2.7	22	82	9	63	41	3	4	50	1.40
103625--103688	11	6.0	11	73	14	62	37	3	1	57	1.24
104997--105052	19	2.8	20	67	5	51	16	21	10	51	1.74
104846--105895	123	8.7	118	82	8	557	26	18	15	39	1.91
104846--105301	118	3.9	115	81	5	449	27	18	14	39	1.90
105211--106157	123	7.7	123	91	0	1455	25	18	16	39	1.90
108980--109028	3	17.7	3	87	12	70	0	26	0	73	0.83
108979--109104	7	17.4	7	82	14	91	3	18	0	78	0.88
109571--109600	7	4.1	7	95	4	51	3	13	0	83	0.77
113911--113946	14	2.6	14	90	0	54	58	2	13	25	1.49
116876--117136	42	6.3	42	92	0	427	20	19	23	36	1.95
117681--117813	40	3.3	40	91	2	221	35	24	19	21	1.96
117706--117819	21	5.6	21	71	8	101	34	25	20	20	1.96
117828--117876	21	2.3	21	89	0	71	18	22	26	32	1.97
121979--122037	8	7.9	8	72	14	54	18	0	35	45	1.50
121977--122037	14	4.1	14	79	10	68	18	0	34	47	1.49
121981--122041	30	2.0	30	100	0	122	19	0	34	45	1.51
128309--128348	20	2.0	20	100	0	80	30	0	35	35	1.58
146011--146054	21	2.0	21	86	4	61	38	13	4	43	1.65
153588--153633	23	2.0	24	95	4	85	36	4	13	45	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
153589--153642	23	2.7	20	83	16	67	40	3	12	42	1.61
153656--153690	13	2.8	13	91	4	54	57	0	0	42	0.99
153868--153966	33	3.0	34	82	4	130	39	3	4	53	1.35
154485--154545	21	2.9	21	97	0	113	21	22	37	18	1.94
154479--154570	21	4.5	21	88	9	111	20	27	33	18	1.96
156321--156392	33	2.3	30	85	7	99	59	1	0	38	1.06
156383--156415	15	2.1	16	88	5	50	72	9	0	18	1.10
157313--157366	20	2.7	21	82	8	76	29	33	12	24	1.92
157948--158000	20	2.7	20	75	0	61	20	15	16	47	1.83
159968--160010	4	10.8	4	79	0	50	27	2	2	67	1.15
159968--160010	12	3.6	12	83	0	59	27	2	2	67	1.15
160150--160270	42	2.9	42	78	8	120	23	37	17	21	1.94
161601--161776	66	2.6	67	85	10	245	28	2	15	53	1.55
161866--161903	13	2.9	13	77	14	51	7	21	28	42	1.81
165419--165474	19	2.9	19	92	5	87	32	10	19	37	1.86
165457--165592	40	3.4	41	79	10	154	21	14	22	41	1.90
165457--165572	20	5.8	20	69	13	78	21	15	22	40	1.91
165503--165621	60	2.0	60	88	3	177	19	15	24	41	1.89
165484--165600	20	5.8	20	75	15	80	19	13	22	44	1.86
167445--167502	21	2.7	21	86	2	71	37	15	6	39	1.74
171434--171477	17	2.5	17	82	10	54	61	0	2	36	1.09
171440--171474	17	1.9	19	88	11	56	60	0	2	37	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
190912--190940	2	14.5	2	100	0	58	51	0	0	48	1.00
191984--192105	60	2.0	61	84	7	160	31	26	4	37	1.77
199599--199972	105	3.6	105	91	0	597	25	20	16	37	1.93
200891--200937	7	7.1	7	79	13	55	4	12	0	82	0.80
200891--200964	25	3.0	24	82	11	71	4	14	0	81	0.84
213114--213167	22	2.4	23	90	6	85	18	22	40	18	1.91
215247--215327	23	3.7	22	75	15	78	22	23	30	23	1.99
220744--220825	22	3.7	22	95	0	146	10	25	41	21	1.86
233459--233513	15	3.9	15	90	9	89	47	14	18	20	1.83
233459--233513	27	1.9	29	89	10	87	47	14	18	20	1.83

Tables:   1   2   3   4   5   6   7   8   9   10