genome.fa.s7823.2.7.7.80.10.50.1000.25.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   31   32   
          33   

This is table  25  of  33  ( 3920 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)
4568843--4568887	3	15.0	3	86	9	65	62	0	2	35	1.08
4568843--4568900	21	2.9	20	75	19	59	60	0	1	37	1.07
4572249--4572282	15	2.2	16	89	5	52	32	2	23	41	1.69
4572811--4572851	19	2.2	19	100	0	82	56	0	19	24	1.42
4576280--4576319	20	2.0	20	100	0	80	25	15	20	40	1.90
4577670--4577713	20	2.2	20	95	0	79	34	11	11	43	1.77
4580896--4582674	165	10.7	164	82	4	1612	31	23	18	25	1.98
4580896--4582642	249	7.0	248	83	3	1639	31	24	18	25	1.98
4580896--4582642	84	21.0	84	80	4	1641	31	24	18	25	1.98
4584028--4584110	25	3.3	25	94	0	148	46	12	4	36	1.62
4591531--4591585	26	2.2	26	86	3	76	16	41	10	30	1.83
4595026--4595723	215	3.2	215	94	2	1188	50	8	12	28	1.68
4595822--4596127	20	15.2	20	70	15	111	45	5	5	43	1.48
4595839--4595893	24	2.3	24	87	6	76	45	3	5	45	1.44
4595830--4595893	24	2.9	22	76	17	62	43	3	6	46	1.44
4595981--4596133	2	80.5	2	65	21	62	46	1	3	48	1.29
4596023--4596076	17	3.1	17	81	2	63	46	0	3	50	1.19
4596055--4596133	22	3.5	23	80	13	76	44	1	3	50	1.28
4596261--4596318	22	2.6	22	88	0	80	51	8	5	34	1.55
4601255--4601304	24	2.1	24	85	7	66	38	8	10	44	1.68
4601299--4601358	27	2.2	27	96	0	111	38	11	3	46	1.57
4601309--4601441	20	6.4	20	64	27	55	39	7	3	49	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4601362--4601531	33	5.3	33	84	10	169	40	6	5	47	1.54
4601407--4601604	18	11.3	18	70	18	123	40	7	8	43	1.63
4601370--4601560	33	6.3	30	80	15	155	41	7	6	44	1.57
4601524--4601640	38	3.0	38	80	13	137	40	9	7	42	1.66
4601443--4601638	18	10.7	18	69	22	106	40	8	8	41	1.67
4601617--4601664	24	2.0	24	84	8	62	37	8	10	43	1.69
4601656--4601797	40	3.4	40	78	10	133	49	8	2	40	1.45
4601679--4601745	20	3.3	20	75	8	82	47	5	1	44	1.36
4601679--4601753	20	3.7	19	72	10	69	48	6	1	44	1.37
4601795--4601847	20	2.7	21	77	11	58	45	3	3	47	1.39
4601864--4601947	26	3.2	25	67	18	64	42	5	8	42	1.59
4602001--4602167	58	2.9	58	89	3	264	43	8	6	41	1.61
4602034--4602082	25	2.0	25	87	0	71	42	8	8	40	1.64
4602118--4602205	33	2.7	32	85	7	113	44	6	5	43	1.54
4602261--4602390	61	2.1	61	85	2	172	49	4	10	35	1.58
4602606--4602950	113	3.0	113	81	13	414	29	28	5	36	1.80
4602709--4602971	122	2.1	122	88	3	395	27	27	6	38	1.82
4603149--4603310	6	27.5	6	70	9	66	47	34	3	14	1.62
4603149--4603219	17	4.1	17	76	5	70	52	32	2	12	1.54
4603165--4603310	24	6.2	23	71	4	78	47	34	4	14	1.63
4603149--4603310	18	8.8	18	73	11	89	47	34	3	14	1.62
4603520--4603544	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4603545--4604196	31	21.3	31	88	2	908	24	3	22	49	1.64
4603723--4603804	22	3.3	22	68	26	65	19	1	23	56	1.49
4606362--4606422	20	3.0	20	85	0	77	13	13	11	62	1.55
4606515--4606597	23	3.6	23	82	6	114	24	18	26	31	1.97
4606514--4606615	46	2.2	46	98	0	195	22	18	26	32	1.97
4606538--4606615	23	3.4	23	82	7	113	21	19	26	32	1.97
4607292--4607388	51	1.9	51	97	0	185	49	5	3	42	1.40
4607365--4607398	17	2.0	17	100	0	68	47	5	0	47	1.26
4607510--4607548	16	2.4	16	82	0	51	33	15	28	23	1.95
4611609--4611716	31	3.5	30	76	12	103	45	5	5	43	1.50
4612592--4612688	48	2.0	48	89	0	149	20	23	15	40	1.91
4617663--4617786	61	2.0	61	95	0	221	34	20	19	25	1.96
4620168--4620199	2	16.0	2	100	0	64	50	0	0	50	1.00
4620185--4620272	35	2.5	34	80	14	83	34	0	15	50	1.45
4622441--4622495	26	2.1	26	100	0	110	38	3	21	36	1.71
4624491--4624645	2	77.5	2	100	0	310	0	0	49	50	1.00
4627657--4627691	18	1.9	18	88	0	52	31	34	14	20	1.92
4627676--4627727	22	2.4	22	93	0	86	32	30	21	15	1.94
4633937--4633989	22	2.4	22	87	0	79	30	30	26	13	1.94
4636957--4636992	17	2.1	18	89	5	56	0	22	0	77	0.76
4638618--4638648	2	15.5	2	100	0	62	51	0	0	48	1.00
4639012--4639161	5	30.0	5	97	0	282	60	18	0	21	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4644644--4644792	60	2.5	60	74	12	137	33	22	4	40	1.73
4644968--4645122	60	2.6	60	78	5	152	38	5	24	31	1.77
4646593--4646647	3	17.7	3	82	14	67	32	0	0	67	0.91
4646593--4646637	18	2.4	19	92	3	74	31	0	0	68	0.89
4646595--4646649	24	2.3	24	87	3	85	32	0	0	67	0.91
4650505--4650544	6	6.2	6	86	13	53	17	20	15	47	1.83
4653953--4654066	37	3.1	37	78	6	124	30	15	11	42	1.83
4653962--4654065	36	2.8	37	85	2	138	33	16	11	38	1.85
4654103--4654161	31	1.9	31	93	3	102	28	13	15	42	1.85
4654133--4654312	99	1.8	100	84	6	249	31	12	13	42	1.81
4654227--4654410	64	2.8	65	83	5	230	32	10	14	42	1.79
4654429--4654491	33	1.9	33	93	0	108	30	17	12	39	1.87
4654412--4654694	29	9.6	29	75	14	197	30	13	13	43	1.82
4654546--4654744	91	2.2	91	83	7	262	28	12	15	44	1.82
4654634--4654691	30	2.0	29	89	3	89	29	13	12	44	1.80
4654973--4655173	40	4.7	40	69	19	111	23	33	18	24	1.97
4654952--4655287	134	2.5	134	87	2	460	25	31	17	25	1.97
4655500--4655538	3	12.7	3	84	15	53	30	0	0	69	0.89
4669365--4669426	23	2.7	23	87	7	81	51	0	0	48	1.00
4669374--4669442	23	3.0	23	87	6	88	46	0	0	53	1.00
4669563--4669631	19	3.6	18	71	21	52	49	1	1	47	1.19
4669526--4669611	27	3.1	27	71	18	70	47	1	2	48	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4669626--4669670	23	2.0	23	86	0	63	53	2	2	42	1.25
4671011--4671046	17	2.1	17	94	0	63	8	5	44	41	1.58
4672595--4672642	25	1.9	25	87	8	71	37	0	0	62	0.95
4672595--4672642	19	2.4	19	93	6	78	37	0	0	62	0.95
4672872--4672918	25	1.9	24	82	4	58	65	17	2	14	1.36
4675306--4675374	30	2.2	30	85	15	95	34	5	17	42	1.73
4675315--4675374	30	2.0	30	93	6	104	33	6	16	43	1.74
4675491--4675558	18	3.9	18	81	13	88	20	36	22	20	1.95
4675510--4675539	15	2.0	15	93	0	51	20	36	23	20	1.95
4675491--4675557	33	2.0	34	91	2	109	20	35	22	20	1.96
4675589--4675630	21	2.0	21	90	0	66	30	19	23	26	1.98
4676842--4676889	19	2.5	19	80	6	53	54	6	10	29	1.59
4678018--4678064	19	2.4	20	82	10	62	31	12	10	44	1.77
4678176--4678244	30	2.2	30	85	15	95	34	5	17	42	1.73
4678185--4678244	30	2.0	30	93	6	104	33	6	16	43	1.74
4678361--4678430	19	3.8	19	73	17	76	22	35	21	20	1.96
4678361--4678429	35	2.0	34	88	2	102	23	34	21	20	1.96
4678531--4678569	20	1.9	21	84	5	53	38	35	10	15	1.81
4681890--4681980	20	4.6	20	78	0	83	20	24	9	45	1.82
4681944--4681988	20	2.2	20	84	0	63	22	22	11	44	1.84
4684893--4684941	20	2.5	20	86	3	64	53	4	12	30	1.57
4686487--4686527	21	1.9	22	85	14	59	36	14	19	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4708323--4708354	15	2.1	15	94	0	55	59	6	9	25	1.52
4708396--4708499	33	3.2	33	94	1	174	44	16	7	31	1.76
4708494--4708535	21	2.0	21	95	0	75	47	7	14	30	1.71
4713397--4713439	6	7.2	6	100	0	86	34	48	0	16	1.46
4718219--4718247	2	14.5	2	100	0	58	51	0	0	48	1.00
4722209--4722255	20	2.3	21	78	10	53	40	2	19	38	1.63
4724928--4724958	2	15.5	2	100	0	62	48	0	0	51	1.00
4725055--4725943	162	5.4	162	87	5	1271	31	22	11	34	1.90
4725055--4725943	243	3.6	243	89	2	1269	31	22	11	34	1.90
4725737--4725766	15	2.0	15	100	0	60	40	26	20	13	1.89

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   31   32   
          33