genome.fa.s8338.2.7.7.80.10.50.1000.3.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: VEPZ01008338.1 Hibiscus syriacus cultivar Beakdansim tig00111059_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2210178

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1386 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)
259917--259969	4	12.5	4	78	9	52	28	1	0	69	0.99
259925--259983	27	2.3	25	82	5	64	30	1	0	67	1.00
260749--261221	181	2.6	182	90	1	734	42	13	16	27	1.87
261142--261188	20	2.4	19	82	10	67	53	10	17	19	1.72
261153--261193	20	2.2	19	83	12	50	51	14	17	17	1.77
263418--263482	21	3.1	21	88	0	94	43	9	30	16	1.80
263516--263581	33	2.0	33	90	0	105	28	0	48	22	1.51
265631--266382	400	1.9	388	90	3	1209	36	15	18	30	1.91
265758--266382	200	3.1	200	95	0	1090	35	14	18	31	1.91
268824--269309	181	2.7	180	91	4	766	36	14	16	32	1.89
269179--269438	131	2.0	129	94	4	461	34	15	16	33	1.91
273068--273119	23	2.4	21	84	12	77	40	17	7	34	1.78
273074--273127	23	2.3	23	96	0	99	35	22	9	33	1.86
273172--273236	23	2.8	23	97	0	121	35	15	9	40	1.79
273080--273321	108	2.2	109	94	2	425	33	15	9	41	1.79
273280--273324	23	2.0	23	86	0	63	37	15	8	37	1.79
280162--280202	20	2.2	19	86	8	57	68	4	2	24	1.22
285071--285327	20	13.8	20	74	15	228	24	17	22	34	1.96
285064--285171	54	2.0	54	92	0	180	24	20	21	34	1.97
285071--285328	34	6.9	40	73	16	167	24	17	23	34	1.96
285162--285319	54	2.9	54	89	0	253	22	17	25	35	1.95
285069--285265	94	2.1	94	86	3	281	23	18	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
285071--285327	74	3.5	72	75	7	239	24	17	22	34	1.96
285299--285567	140	1.9	140	96	0	502	41	14	13	30	1.85
285627--285661	18	1.9	18	100	0	70	17	5	22	54	1.64
288795--288841	20	2.3	20	92	0	76	25	21	27	25	1.99
288810--288906	40	2.4	40	86	3	115	25	19	18	36	1.95
288834--288921	40	2.2	40	93	0	149	27	18	15	38	1.91
288830--288912	20	4.2	20	95	0	148	25	19	15	39	1.91
289291--289408	2	59.0	2	100	0	236	0	50	0	50	1.00
289478--289515	2	19.0	2	100	0	76	0	50	0	50	1.00
289371--289585	107	2.0	107	100	0	430	17	27	8	46	1.77
290759--290858	32	3.2	31	78	7	103	51	25	9	15	1.72
290834--290872	16	2.4	16	86	0	51	58	30	5	5	1.41
290775--290881	32	3.3	32	80	1	115	49	27	7	15	1.71
291150--291184	18	1.9	18	94	0	61	37	5	5	51	1.50
293871--293912	5	8.4	5	91	0	57	4	40	35	19	1.72
294921--295363	54	8.5	53	74	11	165	32	13	22	32	1.92
294959--295107	53	2.8	54	81	4	167	36	11	21	30	1.89
295071--295148	41	1.9	41	89	0	120	41	11	23	24	1.87
295112--295654	54	10.2	54	77	4	458	30	13	23	33	1.93
296997--297038	10	4.1	10	88	11	59	38	0	2	59	1.10
298660--298685	6	4.3	6	100	0	52	15	0	69	15	1.20
310887--310951	33	2.0	33	93	0	112	26	4	18	50	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
312505--312545	20	2.0	20	90	0	64	56	0	14	29	1.39
319009--319035	2	13.5	2	100	0	54	51	0	0	48	1.00
319086--319135	25	2.0	26	84	4	66	38	0	10	52	1.35
319198--319227	15	2.0	15	93	0	51	43	3	26	26	1.70
319478--319534	30	1.9	30	88	0	87	26	19	21	33	1.97
319519--319577	22	2.6	23	83	5	75	25	18	27	28	1.98
323796--323842	21	2.3	21	92	3	78	21	29	36	12	1.91
323796--323854	20	2.9	20	87	2	82	20	30	30	18	1.96
323847--323902	15	3.5	15	71	21	51	19	33	25	21	1.97
323820--323903	33	2.5	34	88	3	125	20	32	27	20	1.97
324016--324057	21	2.0	21	90	0	66	23	19	28	28	1.98
324340--324409	34	2.1	32	89	5	104	31	15	31	21	1.95
325400--325440	3	14.0	3	87	5	57	68	0	29	2	1.03
327388--327461	20	4.1	19	74	19	77	21	35	27	16	1.94
327575--327616	21	2.0	21	95	0	75	23	21	28	26	1.99
328503--328546	22	2.0	22	82	8	54	43	6	22	27	1.78
328597--328621	2	12.5	2	100	0	50	52	0	0	48	1.00
328784--328813	15	2.0	15	93	0	51	43	3	26	26	1.70
329031--329119	30	2.9	30	83	3	106	26	17	20	34	1.95
329104--329162	22	2.6	22	83	5	73	22	22	27	28	1.99
329909--329974	28	2.3	28	87	7	89	22	3	3	71	1.14
329909--330006	29	3.4	29	83	5	92	28	3	3	65	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329962--330168	59	3.5	59	70	16	167	42	4	1	51	1.32
330115--330168	27	2.1	25	83	13	65	42	3	0	53	1.18
330154--330197	17	2.4	19	88	11	65	59	0	0	40	0.98
330251--330279	2	14.5	2	100	0	58	51	0	0	48	1.00
330284--330350	29	2.3	30	86	5	100	68	1	2	26	1.12
334695--334756	2	31.0	2	100	0	124	50	0	0	50	1.00
335517--335565	22	2.2	23	96	3	91	10	30	28	30	1.90
341338--341383	24	2.0	23	86	4	65	34	4	4	56	1.39
343575--343636	25	2.5	25	94	0	106	25	24	24	25	2.00
349243--349287	13	3.5	13	87	0	63	35	11	20	33	1.88
349107--349264	85	1.9	85	81	2	192	29	17	19	34	1.94
364163--364235	33	2.3	32	86	9	96	41	0	0	58	0.98
364163--364260	30	3.3	30	80	8	96	39	0	0	60	0.97
364212--364259	25	2.0	24	88	12	71	37	0	0	62	0.95
364397--364435	17	2.3	17	86	0	51	43	0	2	53	1.14
373092--373130	16	2.5	16	87	4	53	33	5	25	35	1.78
373104--373134	16	1.9	16	100	0	62	32	6	25	35	1.82
373522--373684	51	3.3	51	73	12	140	18	31	30	20	1.96
373644--375550	635	3.0	633	97	0	3589	41	15	13	29	1.85
375328--375387	23	2.7	23	82	5	70	66	13	6	13	1.43
376014--376118	51	2.1	49	82	7	122	23	28	30	17	1.97
376164--376228	29	2.2	29	86	10	89	46	6	15	32	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
380091--380194	29	3.7	29	88	10	155	17	41	25	15	1.89
380379--380449	29	2.4	29	97	0	133	21	25	33	19	1.97
380443--380467	12	2.1	12	100	0	50	16	0	60	24	1.36
380506--380573	35	1.9	35	93	0	118	27	30	16	25	1.96
380993--381039	20	2.3	20	78	10	51	29	0	19	51	1.47
381421--381447	14	1.9	14	100	0	54	7	3	14	74	1.18
381418--381450	17	1.9	17	88	11	50	9	3	15	72	1.21
381514--381577	17	3.5	17	74	14	65	39	0	10	50	1.38
381540--381581	22	2.0	22	85	4	59	40	0	9	50	1.35
381805--381869	26	2.6	25	79	13	62	50	6	1	41	1.36
382697--382989	146	2.0	147	99	0	579	35	19	25	20	1.96
384724--384924	12	16.5	12	71	16	103	45	2	9	41	1.52
384711--385120	26	17.0	26	75	16	243	43	2	10	43	1.51
384659--385120	122	3.9	122	92	6	756	43	2	10	43	1.50
385083--385182	12	8.9	12	76	8	61	43	2	4	51	1.32
387569--387647	31	2.5	33	86	9	105	48	12	0	39	1.41
388133--388229	50	2.0	49	95	4	178	23	19	38	18	1.93
388264--388329	29	2.3	29	91	0	105	22	33	30	13	1.93
388316--388392	32	2.5	32	89	4	122	10	35	27	27	1.89
388483--388542	29	2.1	29	93	0	102	20	28	26	25	1.99
389249--389290	17	2.5	17	81	14	52	71	4	0	23	1.05
391114--391187	29	2.6	29	84	0	103	45	21	8	24	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397740--397810	29	2.4	29	95	0	124	45	21	11	22	1.83
399197--399312	42	2.8	42	89	0	178	18	14	19	47	1.83
399556--399625	29	2.4	28	82	17	81	48	0	2	48	1.16
399579--399616	20	1.9	20	88	0	58	47	0	0	52	1.00
399589--399647	27	2.3	26	83	11	77	47	0	3	49	1.18
399721--399791	25	2.6	28	77	16	71	47	2	0	49	1.16
399721--399798	27	2.9	27	76	12	72	47	2	0	50	1.15
399771--399823	25	2.0	27	82	10	65	54	0	0	45	0.99
401399--401442	21	2.1	21	95	0	79	61	11	4	22	1.48
401705--401787	23	3.6	23	75	10	62	54	12	18	15	1.71

Tables:   1   2   3   4   5   6   7   8   9   10   11   12