genome.fa.s8209.2.7.7.80.10.50.1000.20.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  20  of  30  ( 3569 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)
4639384--4639447	29	2.2	30	86	8	96	40	0	10	48	1.38
4639415--4639702	35	7.8	35	76	12	233	47	2	5	44	1.40
4639421--4639702	36	7.7	36	77	12	211	47	2	5	43	1.40
4639651--4639701	26	2.0	26	84	7	68	50	0	1	47	1.12
4639421--4639735	72	4.4	71	76	14	197	47	2	5	44	1.39
4639743--4639810	20	3.3	21	80	11	70	22	2	1	73	1.05
4639753--4639819	6	10.5	6	74	15	55	19	2	2	74	1.08
4639744--4639811	14	4.7	15	75	17	56	22	2	1	73	1.05
4639744--4639824	20	4.2	20	73	20	66	20	3	2	72	1.11
4641492--4641555	31	2.1	31	85	5	85	28	7	10	53	1.64
4642087--4642130	21	2.1	21	86	0	61	56	13	15	13	1.67
4646389--4646436	14	3.7	14	78	21	68	58	14	12	14	1.64
4646389--4646454	24	2.7	24	88	4	96	56	16	12	15	1.68
4646889--4646914	9	2.9	9	100	0	52	19	11	0	69	1.18
4647585--4647634	23	2.2	23	92	0	82	38	8	22	32	1.83
4648304--4648894	200	3.0	199	87	3	794	28	13	16	41	1.86
4649079--4649130	24	2.2	24	86	6	70	51	11	5	30	1.61
4649374--4650093	181	4.0	180	86	3	980	26	15	13	43	1.84
4653121--4653610	245	2.0	245	100	0	980	23	24	20	31	1.98
4653634--4653665	15	2.1	15	94	0	55	6	25	15	53	1.65
4654699--4655092	198	2.0	198	92	0	662	29	14	18	36	1.91
4664504--4664595	46	2.0	46	97	0	175	20	8	32	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4666942--4667001	3	19.7	3	83	10	77	36	0	0	63	0.95
4669033--4669067	15	2.2	16	90	5	54	20	5	0	74	1.02
4673667--4673740	17	4.1	17	84	11	87	81	0	17	1	0.77
4673659--4673732	29	2.5	29	86	6	96	81	0	17	1	0.77
4673663--4673733	6	11.5	6	82	14	83	81	0	16	1	0.76
4673670--4673745	11	5.9	14	85	14	71	80	0	17	2	0.83
4675874--4676093	114	1.9	114	94	0	386	32	15	21	30	1.95
4678082--4678233	54	2.8	54	90	0	223	38	13	23	25	1.91
4678551--4678602	22	2.4	22	83	6	70	36	13	13	36	1.84
4679157--4679875	175	4.0	184	93	2	1091	33	14	14	37	1.87
4679819--4680228	76	5.4	76	98	0	784	22	19	23	34	1.96
4680361--4680437	3	24.7	3	92	5	118	33	0	0	66	0.92
4681747--4681822	27	2.9	26	73	7	73	28	1	3	65	1.18
4683889--4683968	35	2.3	35	91	4	126	42	21	0	36	1.53
4683909--4683984	35	2.2	35	87	0	107	43	27	0	28	1.55
4684142--4684430	148	2.0	147	90	0	452	36	6	10	46	1.64
4684936--4685012	35	2.2	36	86	6	113	38	2	15	42	1.61
4686897--4687012	40	2.9	40	97	0	214	38	16	18	25	1.92
4690082--4690154	31	2.4	31	83	4	85	30	34	20	15	1.93
4693637--4693676	20	2.0	20	90	5	62	12	25	37	25	1.91
4697484--4697523	21	1.9	21	85	10	55	35	10	2	52	1.48
4701912--4702006	23	4.0	23	68	22	54	43	3	2	51	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4702092--4702138	23	2.1	23	84	7	62	51	0	0	48	1.00
4702092--4702154	23	2.8	22	77	13	58	47	0	3	49	1.17
4702264--4702363	13	7.6	13	69	21	59	43	1	3	53	1.23
4702305--4702365	14	4.6	14	75	17	58	39	0	3	57	1.15
4702254--4702397	11	12.2	12	68	19	65	47	0	2	50	1.18
4702356--4702409	23	2.3	23	87	6	74	53	0	0	46	1.00
4707354--4707449	22	4.4	22	80	10	117	17	17	27	37	1.93
4708160--4708252	22	4.4	22	79	8	120	35	25	19	19	1.95
4708241--4708304	21	3.1	21	68	8	60	39	25	17	18	1.92
4712479--4712547	23	3.1	23	72	6	79	31	26	20	21	1.98
4716940--4717102	84	2.0	84	86	3	231	32	18	18	30	1.95
4717080--4717138	13	4.5	13	86	0	73	35	18	18	27	1.94
4719309--4719412	45	2.3	44	88	1	145	22	23	29	25	1.99
4724760--4724827	23	3.1	23	75	8	79	30	25	22	22	1.99
4725472--4725520	19	2.6	19	93	0	89	26	22	20	30	1.98
4726678--4726731	26	2.1	26	100	0	108	31	7	20	40	1.80
4727966--4728052	35	2.4	36	88	1	122	26	21	8	43	1.80
4729859--4729988	65	2.0	66	84	7	174	32	16	21	29	1.96
4729981--4730027	13	3.7	13	82	5	60	38	12	17	31	1.87
4730969--4731027	21	2.8	21	76	7	57	38	22	16	22	1.93
4732001--4732156	45	3.5	45	83	0	179	22	21	30	25	1.98
4735807--4735875	23	3.1	23	72	6	79	31	26	20	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4740360--4740525	85	2.0	85	89	2	253	32	17	19	30	1.95
4740503--4740561	13	4.5	13	86	0	73	35	18	18	27	1.94
4742547--4742653	45	2.4	45	85	0	142	23	22	28	25	1.99
4748031--4748099	23	3.1	23	77	6	88	30	26	21	21	1.99
4748751--4748799	19	2.6	19	96	0	89	26	24	20	28	1.99
4751260--4751347	36	2.4	36	90	0	131	26	21	7	44	1.79
4751256--4751360	36	2.9	34	79	10	111	24	20	6	48	1.73
4753163--4753302	72	1.9	72	89	2	219	32	17	20	29	1.96
4753287--4753351	26	2.5	26	84	0	85	36	15	18	29	1.91
4753293--4753351	13	4.5	13	84	0	73	35	16	18	28	1.93
4754302--4754360	21	2.8	21	76	7	57	38	22	16	22	1.93
4755372--4755527	45	3.5	45	83	0	179	22	21	30	25	1.98
4759364--4759432	23	3.1	23	72	6	79	31	26	20	21	1.98
4763926--4764091	85	2.0	85	89	2	253	32	17	19	30	1.95
4764069--4764127	13	4.5	13	86	0	73	35	18	18	27	1.94
4766114--4766220	45	2.4	45	85	0	142	23	22	28	25	1.99
4771296--4771320	13	1.9	13	100	0	50	48	4	0	48	1.20
4771885--4772025	74	1.9	75	86	7	207	29	14	9	46	1.76
4773150--4773288	72	1.9	72	86	2	199	28	15	9	47	1.76
4778034--4778066	10	3.5	10	84	16	52	48	6	0	45	1.27
4778052--4778567	177	3.0	174	92	5	824	57	5	6	31	1.47
4780071--4780631	105	5.4	104	93	2	898	22	17	26	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4780072--4780631	211	2.7	210	91	3	909	22	17	25	34	1.96
4781374--4781470	50	1.9	50	85	4	133	15	24	12	47	1.80
4791894--4791926	10	3.5	10	84	16	52	48	6	0	45	1.27
4795519--4795579	29	2.1	30	85	11	83	49	1	0	49	1.10
4796507--4796574	30	2.3	30	82	2	84	42	5	7	44	1.56
4800694--4800764	35	2.0	35	88	0	106	25	8	12	53	1.66
4806623--4806689	22	3.0	22	88	0	107	40	19	20	19	1.92
4807974--4808000	2	13.5	2	100	0	54	51	0	0	48	1.00
4818183--4818208	13	2.0	13	100	0	52	38	7	7	46	1.61
4825064--4825103	20	2.0	20	95	0	71	32	5	30	32	1.79
4826333--4826401	27	2.6	27	95	0	120	53	1	2	42	1.24
4845515--4845583	31	2.2	32	84	5	86	23	7	1	68	1.23
4856552--4856585	16	2.1	17	89	10	54	23	0	5	70	1.09
4858568--4858601	13	2.6	13	100	0	68	41	8	20	29	1.82
4862543--4862760	68	3.3	63	73	19	171	41	4	9	45	1.55
4862607--4862722	61	1.9	61	82	8	146	43	6	7	43	1.58
4862573--4862735	62	2.5	64	76	16	158	41	4	7	46	1.53
4863854--4863924	30	2.3	31	79	15	85	30	16	4	47	1.66
4864164--4864235	29	2.7	25	77	12	72	38	20	9	30	1.85
4869571--4869662	45	2.0	45	91	0	148	32	17	27	22	1.96
4886917--4886993	21	3.7	21	72	10	68	22	12	27	37	1.91
4887067--4887124	20	2.8	21	75	12	57	27	15	24	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4891907--4891954	23	2.1	23	88	0	69	35	12	18	33	1.89
4892913--4892977	23	2.8	23	90	0	94	38	18	7	35	1.80
4893285--4893323	20	2.0	20	89	0	60	48	10	15	25	1.76
4893752--4893811	21	2.7	22	82	7	68	40	18	6	35	1.77
4892915--4893899	416	2.4	421	95	4	1793	38	13	8	39	1.75
4894061--4894109	23	2.1	23	88	7	73	42	18	2	36	1.62
4893578--4894192	321	1.9	316	94	4	1096	41	14	8	35	1.76
4894260--4894313	23	2.5	20	75	18	54	42	18	1	37	1.61
4894275--4894337	23	2.7	23	90	0	90	38	19	6	36	1.77
4893987--4894397	205	2.0	204	97	2	772	38	15	10	36	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30