genome.fa.s8719.2.7.7.80.10.50.1000.17.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: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4817204

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

This is table  17  of  18  ( 2140 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)
4419110--4419139	15	1.9	16	93	6	53	30	0	0	70	0.88
4425365--4425393	14	2.0	15	93	6	51	62	0	0	37	0.96
4430372--4430475	24	4.3	24	74	11	88	51	15	13	19	1.75
4434089--4434139	21	2.4	21	80	6	68	21	25	19	33	1.97
4434129--4434180	21	2.5	21	87	3	70	38	17	23	21	1.93
4434170--4434316	20	7.3	20	87	6	172	29	26	19	25	1.98
4434167--4434343	40	4.4	41	81	6	157	32	24	19	24	1.98
4434477--4434510	12	2.9	12	86	4	52	17	41	5	35	1.74
4435065--4435118	24	2.2	24	83	0	63	22	16	20	40	1.91
4437511--4437554	20	2.2	20	88	4	63	36	20	22	20	1.95
4437538--4437664	33	3.8	33	90	0	191	48	19	20	11	1.80
4437518--4437687	19	9.7	19	71	18	109	47	20	20	11	1.80
4437586--4437643	14	3.8	14	73	20	53	46	18	22	12	1.82
4437538--4437664	66	1.9	66	93	0	218	48	19	20	11	1.80
4437570--4437687	52	2.3	51	77	10	123	50	20	19	10	1.76
4437846--4437882	14	2.6	14	86	0	56	48	18	0	32	1.49
4439233--4439299	21	3.2	21	68	4	55	19	20	35	23	1.95
4439233--4439355	42	2.9	41	79	7	113	22	18	36	21	1.95
4439702--4439740	20	2.0	20	94	0	69	33	28	12	25	1.93
4439728--4439781	19	2.8	19	94	2	90	33	24	25	16	1.96
4439747--4439831	19	4.7	19	73	16	65	43	21	21	14	1.87
4439847--4439959	19	6.1	19	74	13	74	14	19	23	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4439914--4439959	20	2.3	20	88	0	65	15	21	26	36	1.93
4440476--4440523	18	2.7	18	93	0	87	14	12	45	27	1.81
4441843--4441901	20	3.0	20	87	0	73	44	22	18	15	1.87
4442374--4442529	20	7.7	20	80	9	104	22	16	25	35	1.95
4442394--4442466	20	3.7	20	94	0	128	23	19	28	28	1.98
4442518--4442611	21	4.5	21	94	1	154	22	23	15	38	1.93
4442518--4442626	42	2.6	42	86	1	112	24	22	17	35	1.95
4442601--4442653	21	2.5	22	81	6	74	33	18	26	20	1.96
4449624--4449658	2	17.5	2	100	0	70	48	0	0	51	1.00
4451639--4451664	13	2.0	13	100	0	52	30	23	7	38	1.83
4452933--4452971	16	2.4	16	86	0	51	15	7	12	64	1.49
4453396--4453444	21	2.3	21	85	0	71	40	16	2	40	1.60
4453519--4453583	34	1.9	34	100	0	130	24	18	21	35	1.96
4453519--4453600	34	2.6	32	90	7	123	25	18	19	36	1.94
4453724--4453836	31	3.6	31	84	4	147	47	4	14	33	1.64
4454144--4454173	7	4.3	7	91	0	51	23	16	16	43	1.87
4458713--4458762	21	2.4	20	80	9	55	54	2	4	40	1.31
4458713--4458760	22	2.2	21	77	3	51	54	2	4	39	1.32
4462653--4463075	65	6.5	65	89	1	589	32	14	21	31	1.93
4465122--4465188	22	3.0	22	95	2	116	25	28	26	19	1.99
4465692--4466218	263	2.0	263	99	0	1045	34	19	5	40	1.75
4467148--4467192	21	2.1	21	87	0	63	15	24	28	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4470810--4470850	14	2.9	14	88	3	64	24	19	31	24	1.98
4477454--4477493	21	1.9	21	84	0	53	27	37	25	10	1.88
4496028--4496094	21	3.2	21	100	0	134	28	10	26	34	1.90
4496111--4496153	22	2.0	22	85	0	59	23	25	25	25	2.00
4500322--4500354	17	1.9	17	88	11	50	57	0	9	33	1.30
4500515--4500563	26	1.9	26	87	4	73	48	4	6	40	1.47
4500620--4500657	18	2.1	18	90	0	58	21	18	28	31	1.97
4518732--4518773	21	2.0	21	85	0	57	50	21	9	19	1.75
4519073--4519101	14	2.1	14	100	0	58	72	6	6	13	1.26
4524815--4525123	152	2.0	153	99	0	611	34	1	25	38	1.67
4525831--4525906	23	3.3	23	83	0	98	23	21	22	32	1.98
4525897--4525954	24	2.5	24	85	2	82	24	24	22	29	1.99
4529483--4529545	32	2.0	32	100	0	126	38	11	15	34	1.83
4530856--4530904	3	16.0	3	87	12	73	34	0	0	65	0.93
4530856--4530904	13	4.0	12	87	12	73	34	0	0	65	0.93
4532162--4532272	31	3.6	31	91	0	177	41	22	18	18	1.90
4535631--4535753	31	4.0	31	92	2	194	37	21	19	21	1.94
4543575--4543612	19	2.0	20	94	5	69	52	31	0	15	1.43
4544712--4544758	3	16.3	3	82	8	53	59	0	0	40	0.97
4544712--4544758	11	4.1	11	81	8	58	59	0	0	40	0.97
4545012--4545625	37	16.2	37	75	8	511	22	19	22	34	1.96
4545039--4545430	153	2.6	153	91	1	617	23	19	22	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4545127--4545395	79	3.5	78	75	8	289	22	20	23	33	1.97
4544931--4545314	190	2.0	190	90	0	597	24	18	22	35	1.96
4545228--4545546	116	2.8	116	88	1	498	22	19	23	34	1.97
4560557--4560613	23	2.5	23	100	0	114	50	24	3	21	1.64
4562385--4562423	20	2.0	20	84	0	51	23	7	23	46	1.78
4562601--4562661	20	2.9	21	85	9	79	21	24	31	22	1.98
4566470--4566522	21	2.6	21	82	11	65	35	9	1	52	1.45
4577116--4577181	33	1.9	35	84	6	91	36	21	9	33	1.85
4577113--4577204	33	2.6	34	72	16	82	31	20	9	38	1.85
4577355--4577611	65	3.9	63	80	7	271	24	17	14	43	1.86
4577394--4577611	65	3.3	65	86	0	301	25	17	14	42	1.87
4577355--4577611	131	2.0	130	83	2	327	24	17	14	43	1.86
4577490--4577612	36	3.6	34	67	16	87	23	17	14	44	1.85
4577615--4577980	131	2.8	131	82	2	455	25	31	17	25	1.97
4578162--4578220	3	19.0	3	86	13	84	35	0	0	64	0.94
4578154--4578220	26	2.5	26	90	7	100	34	0	1	64	1.03
4578163--4578220	23	2.5	23	88	11	91	36	0	0	63	0.94
4584600--4584651	21	2.6	21	90	6	81	34	13	5	46	1.67
4587177--4587238	23	2.9	21	88	7	81	20	33	25	19	1.96
4587200--4587259	21	2.8	21	82	10	59	25	35	21	18	1.96
4595629--4595760	61	2.2	61	83	0	165	25	18	28	28	1.98
4602366--4602488	60	2.0	60	80	6	133	39	3	26	30	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4605965--4605989	13	1.9	13	100	0	50	28	0	16	56	1.41
4608925--4609099	90	2.0	89	93	3	298	44	8	10	37	1.68
4610681--4610737	7	7.9	7	98	2	96	31	0	26	42	1.56
4611466--4611535	20	3.6	19	79	15	72	32	12	30	24	1.93
4611893--4612772	54	16.2	54	85	4	1069	33	16	16	33	1.91
4612990--4613158	81	2.1	81	89	2	259	36	11	21	30	1.89
4613012--4613178	81	2.1	81	82	4	203	37	11	20	30	1.88
4613183--4613352	45	3.8	45	89	0	216	47	6	22	23	1.74
4613274--4613347	23	3.4	21	70	17	69	47	4	24	24	1.69
4615231--4615255	2	12.5	2	100	0	50	52	0	0	48	1.00
4617458--4617519	22	2.8	22	92	4	99	35	14	20	29	1.93
4617795--4618570	54	14.4	54	91	0	1192	32	16	17	33	1.93
4618782--4618933	81	1.9	82	88	4	236	37	11	21	29	1.88
4618963--4619144	45	4.1	45	88	0	249	46	6	21	25	1.74
4619797--4619842	15	3.0	15	83	3	56	39	15	13	32	1.85
4619817--4619851	15	2.3	15	90	0	52	42	11	17	28	1.83
4620031--4620095	24	2.7	24	100	0	130	16	16	27	38	1.91
4621969--4622038	30	2.3	32	78	14	76	38	7	1	52	1.38
4622141--4622245	27	4.0	27	68	25	80	50	0	5	43	1.26
4622766--4623441	365	1.9	362	84	5	905	30	13	13	43	1.82
4624618--4624652	13	2.6	14	90	4	54	28	0	5	65	1.15
4626202--4626247	3	15.3	3	100	0	92	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4628469--4628506	19	2.1	18	85	9	51	34	5	0	60	1.19
4629141--4629173	11	2.8	12	86	13	50	9	9	0	81	0.87
4639518--4639555	18	2.1	18	95	0	67	31	7	5	55	1.51
4641882--4642194	124	2.7	116	84	8	377	38	14	20	26	1.91
4641986--4642263	124	2.2	124	87	8	397	38	14	20	25	1.91
4642247--4642280	17	2.0	17	100	0	68	47	5	23	23	1.73
4642241--4642280	17	2.2	18	91	8	64	47	5	25	22	1.71
4642625--4642694	3	23.3	3	94	0	86	34	0	8	57	1.29
4644095--4644159	26	2.4	25	80	14	67	41	0	1	56	1.08
4644139--4644412	142	1.9	147	85	6	391	39	6	6	47	1.55

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