genome.fa.s5794.2.7.7.80.10.50.1000.1.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: VEPZ01005794.1 Hibiscus syriacus cultivar Beakdansim tig00013582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  201817

Tables:   1   2   

This is table  1  of  2  ( 221 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)
12071--12113	22	2.0	22	90	0	68	62	0	4	32	1.15
12070--12123	22	2.5	21	82	11	65	64	0	7	27	1.20
13000--13044	23	1.9	24	90	4	74	28	11	0	60	1.31
13476--13515	21	1.9	21	84	0	53	35	2	0	62	1.09
13558--13597	19	2.1	19	95	0	71	52	0	2	45	1.14
25872--25929	12	4.8	12	87	8	73	55	0	39	5	1.22
25875--25929	18	3.1	17	76	10	56	54	0	40	5	1.23
26800--26852	20	2.7	20	82	5	63	41	22	18	16	1.90
26880--27058	81	2.2	81	90	3	272	39	24	17	18	1.92
26861--27054	20	9.6	20	77	6	176	38	24	18	19	1.93
26861--27054	40	4.8	41	89	1	284	38	24	18	19	1.93
26800--27058	40	6.4	41	83	6	280	38	23	17	20	1.93
26820--27054	121	1.9	121	88	4	350	38	24	17	19	1.93
27147--27194	20	2.4	20	86	6	71	35	25	20	18	1.95
27147--27202	20	2.8	20	83	5	60	33	23	21	21	1.97
28048--28107	24	2.5	24	83	0	84	25	18	18	38	1.93
30099--30154	20	2.8	20	80	20	80	39	19	25	16	1.91
30090--30235	19	8.1	19	72	17	105	45	18	23	12	1.83
30119--30235	52	2.2	52	89	1	180	44	19	23	11	1.84
30258--30349	40	2.3	40	85	7	116	11	18	19	50	1.78
30262--30352	20	4.6	20	80	9	105	12	16	19	51	1.75
30911--31126	20	10.6	20	77	6	218	17	18	25	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30913--31126	40	5.2	41	88	3	315	17	17	25	38	1.92
31135--31187	20	2.7	20	85	5	72	15	18	24	41	1.89
31237--31290	20	2.7	19	75	8	63	16	18	31	33	1.93
33778--33866	46	1.9	47	86	2	126	28	14	14	42	1.85
33512--34153	277	2.3	276	89	1	971	33	16	13	36	1.88
39162--39200	19	2.1	19	85	0	51	53	17	10	17	1.71
39359--39395	19	1.9	19	88	0	56	67	10	0	21	1.21
40244--40435	29	6.5	29	83	4	190	19	47	22	10	1.80
40361--40506	10	14.7	10	67	22	69	23	47	17	10	1.79
40361--40526	30	5.2	30	82	12	215	23	48	17	10	1.79
40380--40458	39	2.0	39	100	0	158	22	48	16	12	1.80
40361--40506	69	2.1	70	92	1	240	23	47	17	10	1.79
41168--41211	21	2.1	21	91	0	70	29	0	15	54	1.42
41188--41241	28	1.9	28	96	0	99	29	0	12	57	1.36
41596--41623	5	5.6	5	100	0	56	64	0	35	0	0.94
44313--44791	60	8.2	59	87	8	675	40	0	13	45	1.45
44379--44718	29	11.2	34	58	28	97	40	0	13	45	1.46
44423--44510	11	7.6	11	71	17	54	39	0	14	45	1.45
44423--44690	21	13.4	20	61	21	62	40	0	14	44	1.48
44310--44738	120	3.6	119	96	2	745	40	0	14	45	1.47
44738--44807	25	3.1	22	79	16	63	38	0	11	50	1.39
44759--44806	14	3.6	14	81	16	66	35	0	16	47	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47111--47186	30	2.5	31	77	16	86	50	10	1	38	1.45
47365--47404	21	1.9	21	100	0	80	57	15	0	27	1.38
47432--47486	18	3.4	18	65	31	52	52	9	0	38	1.33
47506--47577	38	2.0	37	86	13	105	48	9	0	41	1.36
47602--47666	28	2.3	29	82	10	82	46	15	1	36	1.55
47955--47990	11	3.2	11	84	7	54	36	19	22	22	1.95
48181--48246	33	2.0	33	90	0	105	16	19	36	27	1.93
48235--48311	10	7.6	10	73	13	59	12	18	46	22	1.82
48214--48315	51	2.0	51	100	0	204	13	17	45	23	1.84
48331--48417	29	3.0	29	84	0	120	14	29	39	16	1.88
56630--56658	15	1.9	15	100	0	58	48	0	0	51	1.00
57329--57524	85	2.3	85	84	3	252	32	20	22	24	1.98
57321--57539	43	5.1	43	83	2	262	32	21	21	23	1.98
60046--60395	41	8.5	41	78	5	287	40	18	15	25	1.90
60172--60399	122	1.9	120	81	4	278	39	20	14	25	1.90
60169--60435	81	3.3	83	79	8	237	38	20	15	25	1.92
60096--60405	163	1.9	163	81	6	371	40	19	15	24	1.90
62918--62983	26	2.5	26	95	0	114	10	22	30	36	1.88
67047--67084	16	2.2	18	86	9	53	36	0	2	60	1.11
73482--73531	20	2.5	20	100	0	100	34	6	14	46	1.69
73857--73887	16	1.9	16	93	0	53	35	0	3	61	1.12
75267--75309	16	2.7	16	96	0	77	37	9	18	34	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
81018--81070	22	2.2	25	83	12	67	54	0	3	41	1.18
82264--82335	3	23.0	3	86	8	99	65	1	0	33	1.02
82265--82343	31	2.6	29	86	9	97	65	1	0	32	1.00
82264--82335	31	2.3	31	92	2	117	65	1	0	33	1.02
82264--82347	7	11.4	7	77	20	75	65	1	0	33	1.00
82585--82643	17	3.4	17	70	25	59	15	23	11	49	1.77
82585--82668	36	2.3	36	100	0	168	15	22	13	48	1.79
82585--82678	36	2.6	34	93	5	134	15	24	11	47	1.79
82618--83372	113	6.5	113	85	6	814	25	19	15	39	1.90
82936--83372	124	3.6	124	91	5	659	25	19	14	40	1.90
82711--83372	362	1.9	350	86	6	936	26	19	14	39	1.90
83809--83863	22	2.5	22	87	0	83	36	14	14	34	1.87
86430--86769	113	3.0	114	91	1	538	30	19	15	34	1.93
88986--89043	6	9.8	6	75	14	50	1	15	1	81	0.86
88984--89043	23	2.5	24	83	2	77	1	15	1	81	0.85
89033--89086	26	2.0	26	96	3	99	3	16	11	68	1.33
92377--92430	14	3.8	14	85	2	63	51	9	14	24	1.71
92547--92601	29	2.0	26	86	10	74	56	9	10	23	1.62
95637--95661	12	2.1	12	100	0	50	0	0	8	92	0.40
96059--96117	3	19.0	3	89	6	82	66	3	0	30	1.08
96059--96129	6	10.4	7	81	14	62	66	2	0	30	1.06
97142--97814	182	3.7	182	88	1	999	40	14	16	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100224--100267	21	2.1	21	95	0	79	40	11	34	13	1.81
100302--100368	33	2.0	33	97	0	125	29	0	46	23	1.53
100550--100588	18	2.2	18	90	0	60	56	0	38	5	1.22
101525--102683	200	5.8	200	87	2	1470	37	14	16	31	1.89
101525--102683	600	1.9	601	86	2	1650	37	14	16	31	1.89
104145--104202	6	9.7	6	90	0	71	41	3	32	22	1.71
104145--104209	6	10.8	6	89	0	67	38	3	33	24	1.71
104145--104202	12	4.8	12	93	0	80	41	3	32	22	1.71
105526--105586	12	5.1	12	77	0	50	36	6	9	47	1.63
105522--105576	18	3.1	18	94	0	92	30	5	12	50	1.63
105514--105586	24	3.0	24	81	0	83	34	5	13	46	1.67
106920--107405	198	2.4	198	93	2	823	39	13	16	30	1.87
107703--108421	199	3.6	198	87	4	957	38	14	15	30	1.88
108506--108550	23	2.0	23	86	0	63	37	15	8	37	1.79
108422--108584	87	1.9	87	89	2	256	33	13	9	42	1.77
112864--112897	5	6.8	5	96	0	59	14	41	20	23	1.89
113589--113631	13	3.4	12	81	18	52	27	0	0	72	0.85
113556--113632	19	4.2	19	76	15	65	32	0	2	64	1.07
115112--115186	24	3.2	24	75	24	97	48	20	12	20	1.80
115100--115186	45	1.9	45	100	0	174	45	18	13	21	1.84
115100--115169	21	3.2	21	75	25	81	44	20	12	22	1.85
122603--122660	26	2.3	25	82	11	66	56	3	1	37	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
123235--124447	84	14.8	83	77	6	1107	23	20	26	29	1.99
123225--124447	165	7.5	164	83	4	1457	23	20	26	29	1.99
123225--124447	329	3.7	329	84	4	1576	23	20	26	29	1.99
127829--127873	19	2.4	19	92	3	74	66	8	13	11	1.44
131107--131164	26	2.3	25	82	11	66	56	3	1	37	1.26
134743--134872	41	3.4	39	71	14	108	23	22	19	34	1.96
138097--138349	42	6.0	42	85	0	290	25	21	18	33	1.96
138099--138349	127	2.0	128	82	2	308	25	20	19	34	1.96
139800--139826	2	13.5	2	100	0	54	48	0	0	51	1.00
139961--140047	30	2.9	30	84	1	111	47	12	1	39	1.49

Tables:   1   2