genome.fa.s7708.2.7.7.80.10.50.1000.1.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: VEPZ01007708.1 Hibiscus syriacus cultivar Beakdansim tig00109923_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  882274

Tables:   1   2   3   

This is table  1  of  3  ( 284 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)
3756--4093	180	1.9	180	87	7	495	44	2	7	45	1.44
9739--9781	17	2.7	16	79	10	52	37	4	6	51	1.50
17968--18019	2	27.5	2	81	11	65	48	1	0	50	1.12
17964--18026	20	3.2	19	80	10	74	46	4	0	49	1.23
18964--19082	62	1.9	63	91	1	195	26	22	15	35	1.94
19578--19612	12	2.9	12	91	0	52	42	2	5	48	1.41
19583--19650	12	6.1	12	74	19	58	33	4	7	54	1.48
31003--31866	105	8.2	105	93	1	1414	33	26	17	21	1.96
32210--32291	2	42.5	2	85	7	116	47	1	0	51	1.08
33238--33354	60	2.0	61	89	3	184	26	23	17	33	1.96
33801--33835	10	3.5	10	92	0	61	40	2	8	48	1.49
33801--33841	10	4.1	11	87	12	54	36	4	9	48	1.58
36052--36099	20	2.4	20	82	6	53	33	4	0	62	1.14
39391--39436	19	2.4	19	88	0	65	45	13	17	23	1.83
40204--40267	23	2.8	24	70	13	62	40	1	7	50	1.41
42028--42180	51	3.0	52	75	9	154	9	24	18	47	1.78
74227--74382	77	2.0	77	88	2	233	37	8	7	46	1.63
78518--78555	20	1.9	20	94	0	67	23	34	28	13	1.92
78543--78594	23	2.3	23	89	0	77	25	26	38	9	1.86
78705--78790	29	3.0	29	96	0	154	19	29	34	16	1.94
88912--89026	58	2.0	58	92	0	194	25	23	21	29	1.99
90187--90478	128	2.3	128	92	1	489	20	23	21	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
91287--91366	34	2.4	33	81	8	92	60	1	0	38	1.05
105719--105978	21	12.6	20	75	11	215	30	21	23	24	1.99
105739--105895	41	3.8	42	82	7	189	31	21	22	24	1.98
105764--105832	20	3.4	20	76	11	86	34	18	23	23	1.96
105821--106021	62	3.2	61	80	10	169	28	21	22	26	1.99
105780--106024	83	3.0	83	77	13	229	28	21	23	26	1.99
105780--106024	21	11.8	21	76	15	181	28	21	23	26	1.99
105988--106034	21	2.2	21	88	0	67	27	25	21	25	1.99
106607--106743	42	3.3	42	96	0	256	35	24	19	19	1.95
106604--106749	21	6.9	20	74	16	127	34	23	20	20	1.96
108618--108689	26	2.7	27	89	4	110	43	13	20	22	1.87
110762--110792	3	10.3	3	92	0	53	61	0	38	0	0.96
136278--136379	42	2.5	42	88	1	152	46	6	13	33	1.70
136299--136366	21	3.2	21	64	15	59	42	2	19	35	1.66
149153--149477	162	2.0	164	97	1	618	38	18	12	30	1.88
152465--152517	27	2.0	27	96	0	97	49	24	9	16	1.76
163132--163159	2	14.0	2	100	0	56	50	0	0	50	1.00
166033--166079	2	23.5	2	100	0	94	0	48	0	51	1.00
168394--168585	60	3.2	60	81	8	187	32	19	3	43	1.69
168737--168848	57	2.0	57	83	3	145	41	5	25	28	1.77
172608--172698	46	2.0	46	100	0	182	30	9	13	46	1.75
173249--174308	529	2.0	529	99	0	2084	35	17	17	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
174330--174365	18	2.1	18	89	5	56	47	2	2	47	1.31
174853--174900	18	2.6	19	83	9	64	56	2	0	41	1.11
176783--176808	2	13.0	2	100	0	52	50	0	0	50	1.00
182964--183043	42	1.9	42	86	0	115	16	7	41	35	1.76
189934--189964	2	15.5	2	100	0	62	48	0	0	51	1.00
190003--190047	2	22.5	2	100	0	90	51	0	0	48	1.00
191773--191811	12	3.2	12	85	0	51	51	17	0	30	1.46
192888--192920	15	2.2	15	100	0	66	45	0	6	48	1.27
197548--197605	24	2.4	23	75	16	55	58	1	1	37	1.18
197779--197935	6	26.2	6	98	0	143	26	55	7	11	1.60
198390--198693	152	2.0	150	89	2	457	41	9	6	42	1.63
206122--206150	10	3.0	10	95	5	51	20	10	17	51	1.74
207227--207273	17	2.8	17	96	0	85	29	23	10	36	1.89
220108--220156	23	2.2	22	92	7	82	22	22	14	40	1.90
222210--222257	13	3.5	14	86	11	64	25	54	20	0	1.45
222221--222257	5	7.8	5	93	6	60	21	56	21	0	1.42
222210--222253	18	2.4	18	96	0	79	25	54	20	0	1.45
234245--234380	60	2.3	59	79	5	150	36	12	5	45	1.66
234505--234640	59	2.3	60	83	1	175	57	2	5	33	1.38
248873--248933	30	2.0	30	83	3	77	44	8	1	45	1.43
248935--248985	20	2.5	20	78	6	59	49	5	1	43	1.38
277425--277778	22	16.6	22	84	9	439	42	0	7	49	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
277425--277778	64	5.5	65	83	11	437	42	0	7	49	1.32
277425--277778	42	8.3	42	83	8	414	42	0	7	49	1.32
277425--277777	104	3.3	102	84	8	329	42	0	7	49	1.32
277797--277856	31	1.9	31	86	6	86	48	6	3	41	1.46
282066--282136	35	2.0	36	83	2	90	45	25	1	28	1.62
283660--283713	28	2.0	27	85	3	72	33	1	0	64	1.04
285426--285552	64	2.0	64	95	1	229	35	7	12	44	1.72
285782--285876	47	2.0	47	100	0	190	29	6	4	60	1.41
299536--299583	23	2.1	23	88	0	69	35	12	18	33	1.89
300307--300343	18	2.1	18	89	0	56	51	10	5	32	1.60
300547--300611	23	2.8	23	90	0	94	38	18	7	35	1.80
300978--301039	22	2.7	23	85	5	81	38	19	6	35	1.77
300549--301566	427	2.4	430	98	1	1992	38	13	8	40	1.74
301390--301443	23	2.5	20	75	18	54	42	18	1	37	1.61
301405--301467	23	2.7	23	90	0	90	38	19	6	36	1.77
302621--302663	21	2.0	21	86	0	59	30	27	25	16	1.97
302643--302796	69	2.2	69	87	1	211	27	27	26	17	1.98
303102--303173	29	2.5	29	93	0	117	38	11	13	36	1.81
303466--303535	23	3.0	23	100	0	140	22	25	25	25	2.00
309571--309613	21	2.0	21	86	0	59	30	27	25	16	1.97
309593--309746	68	2.2	69	88	1	220	27	27	26	17	1.98
310052--310123	29	2.5	29	93	0	117	38	11	13	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
310416--310485	23	3.0	23	100	0	140	22	25	25	25	2.00
312742--313594	184	4.7	184	97	1	1606	33	15	15	35	1.89
314963--315049	3	29.0	3	77	0	84	24	34	5	35	1.79
314963--315064	18	5.7	18	79	0	87	22	34	6	36	1.81
314971--315061	42	2.2	42	91	0	146	21	35	7	35	1.83
316529--318147	199	8.1	199	97	0	2976	31	15	15	37	1.88
318229--318273	19	2.4	19	92	0	72	57	8	2	31	1.41
320068--320133	33	2.0	33	87	0	96	24	45	1	28	1.62
322239--322291	24	2.2	24	83	6	63	26	7	13	52	1.66
322436--322482	20	2.4	19	79	10	58	21	17	6	55	1.64
322603--322649	20	2.3	20	89	10	78	17	17	10	55	1.69
330045--330100	2	28.5	2	79	16	64	44	0	3	51	1.18
330178--330222	23	2.0	23	81	0	54	35	15	13	35	1.87
340667--340719	2	26.5	2	100	0	106	0	49	0	50	1.00
342060--342089	3	10.0	3	100	0	60	66	0	0	33	0.92
343160--343239	30	2.7	30	90	1	126	37	7	13	41	1.73
343304--343369	19	3.5	19	91	0	96	39	10	13	36	1.80
343478--343519	21	2.0	21	100	0	84	23	19	28	28	1.98
343548--343587	20	1.9	21	85	10	55	37	37	10	15	1.80
348307--348395	42	2.1	42	100	0	178	29	31	20	19	1.97
367623--367652	15	2.0	15	93	0	51	3	3	6	86	0.77
379134--379187	24	2.5	22	74	14	58	46	5	16	31	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
379181--379330	76	2.0	76	97	0	282	38	18	9	34	1.83
380315--380360	17	2.7	17	96	0	83	41	23	0	34	1.55
380974--381019	2	23.5	2	95	4	85	52	0	0	47	1.00
384821--384854	18	1.9	18	88	5	52	14	26	32	26	1.95
386630--386670	16	2.5	17	92	4	66	78	0	0	21	0.76
396321--396406	42	2.0	42	86	8	122	22	12	16	48	1.79
398740--398781	2	21.0	2	90	0	66	45	0	54	0	0.99
411821--411860	2	20.0	2	100	0	80	50	0	50	0	1.00
421447--421494	25	1.9	25	86	0	69	56	4	0	39	1.19
430056--430206	54	2.8	53	87	3	212	27	21	17	33	1.96

Tables:   1   2   3