genome.fa.s8041.2.7.7.80.10.50.1000.19.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: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4970990

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  19  of  21  ( 2430 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)
4392646--4392722	23	3.3	23	75	7	75	24	23	20	31	1.98
4396633--4396679	15	3.1	15	87	6	67	38	4	21	36	1.73
4396635--4396697	16	4.0	16	89	2	83	39	4	20	34	1.74
4396830--4396906	23	3.3	23	70	10	66	25	23	18	32	1.97
4402746--4402798	27	2.0	27	85	14	74	39	0	13	47	1.43
4403151--4403261	24	4.8	24	82	7	131	19	23	24	32	1.98
4403357--4403393	19	1.9	19	88	0	56	56	2	8	32	1.43
4406486--4406510	2	12.5	2	100	0	50	52	0	0	48	1.00
4416971--4417789	188	4.4	186	75	9	540	40	12	15	31	1.84
4419747--4419849	52	2.0	51	86	1	143	30	11	24	33	1.91
4420493--4420551	32	1.9	32	86	6	86	22	8	8	61	1.52
4422322--4422375	29	1.9	28	81	7	65	48	11	18	22	1.79
4425084--4425186	52	2.0	52	94	0	179	47	5	15	31	1.69
4425835--4425888	22	2.6	21	80	11	67	25	14	29	29	1.95
4425782--4425967	95	1.9	96	84	3	250	32	17	22	27	1.96
4426573--4426616	21	2.1	21	95	0	79	15	43	27	13	1.85
4427707--4427752	20	2.4	20	85	7	60	50	6	13	30	1.66
4427736--4427795	20	3.1	20	68	13	54	56	3	13	26	1.52
4427918--4428114	99	2.0	98	95	4	353	41	15	22	20	1.89
4429986--4430160	59	3.0	58	83	8	221	32	11	21	34	1.89
4430529--4430849	68	4.7	68	88	0	464	32	13	23	30	1.93
4430801--4431015	81	2.7	79	84	3	270	35	13	22	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4436997--4437043	22	2.3	21	85	10	62	36	12	14	36	1.85
4437382--4437612	54	4.3	54	74	7	184	32	16	18	32	1.93
4437554--4438212	55	12.1	55	85	4	807	35	19	18	26	1.95
4437513--4437811	110	2.7	110	85	2	271	36	19	17	26	1.94
4438566--4438661	46	2.1	46	90	3	149	44	5	22	27	1.74
4438634--4438768	45	3.0	45	83	5	175	38	11	23	25	1.89
4438588--4438769	45	4.0	44	78	8	159	40	9	23	26	1.85
4442438--4442491	20	2.7	19	88	8	81	31	16	31	20	1.95
4442910--4443121	54	3.9	54	81	1	246	30	17	20	31	1.95
4443070--4443562	55	9.1	55	83	4	585	35	19	19	25	1.96
4443369--4443466	46	2.1	46	92	0	160	35	18	18	27	1.94
4443318--4443516	101	2.0	101	91	0	326	35	18	20	26	1.95
4443419--4443559	54	2.6	54	83	5	167	34	19	21	24	1.97
4443833--4443969	68	2.0	68	88	0	202	31	15	21	31	1.94
4446825--4446883	29	2.0	29	93	0	100	18	32	20	28	1.96
4462709--4462778	30	2.2	32	82	14	92	62	12	2	21	1.42
4465916--4465973	18	3.1	18	83	11	71	48	8	12	31	1.70
4479550--4479583	3	11.7	3	93	6	61	32	0	0	67	0.91
4486066--4486139	31	2.4	31	84	8	105	31	27	8	33	1.86
4491963--4492056	46	2.0	46	87	0	134	22	26	17	34	1.96
4492537--4492575	18	2.2	18	85	0	51	23	5	10	61	1.48
4493533--4493563	16	1.9	16	93	0	53	38	22	16	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4493548--4493622	23	3.2	23	76	1	78	44	14	16	25	1.85
4494617--4494651	2	17.5	2	100	0	70	48	0	0	51	1.00
4494666--4494735	35	2.0	35	100	0	140	40	8	28	22	1.84
4499787--4499908	61	2.0	61	100	0	244	32	13	16	37	1.87
4500993--4501032	21	2.0	20	85	5	53	37	7	25	30	1.83
4501064--4501135	19	3.7	20	87	5	103	33	15	16	34	1.90
4502201--4502303	32	3.2	32	83	0	143	38	18	11	31	1.87
4502200--4502339	64	2.2	63	83	7	176	38	20	10	30	1.86
4503916--4503956	20	2.0	22	85	9	59	65	2	7	24	1.30
4503878--4504080	85	2.6	76	77	16	239	68	3	7	20	1.28
4503929--4504058	38	3.2	38	66	24	102	70	0	8	20	1.19
4503913--4504095	85	2.1	85	94	1	321	69	2	7	20	1.24
4506431--4506460	16	1.9	15	93	6	51	73	10	3	13	1.21
4510582--4510643	23	2.7	23	92	2	99	22	32	25	19	1.97
4517852--4517881	15	2.0	15	93	0	51	40	10	6	43	1.64
4521932--4522005	31	2.4	31	83	0	85	36	17	10	35	1.85
4524950--4524999	19	2.6	19	100	0	100	24	22	32	22	1.98
4525959--4525991	5	6.8	5	93	6	59	81	0	18	0	0.68
4527841--4527951	42	2.6	42	89	0	177	24	15	11	48	1.78
4532448--4532508	8	7.5	8	71	10	52	80	4	13	1	0.95
4532441--4532507	25	2.7	23	73	15	64	79	7	11	1	1.00
4533109--4533161	22	2.4	22	93	0	88	35	26	9	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4534083--4534928	106	8.0	106	91	0	1284	34	24	18	22	1.96
4536151--4536195	16	2.9	16	90	9	67	22	13	20	44	1.85
4536631--4536741	42	2.6	42	86	0	168	23	15	12	48	1.79
4545300--4545360	23	2.5	24	79	12	72	60	0	1	37	1.07
4545293--4545360	21	2.9	23	79	18	77	60	0	2	36	1.12
4548498--4548638	64	2.2	63	81	7	160	26	24	17	31	1.97
4554375--4554779	82	4.9	82	79	5	352	33	17	18	31	1.94
4554381--4554778	164	2.4	163	80	8	439	33	17	17	31	1.94
4554942--4554981	18	2.2	18	86	8	55	70	0	5	25	1.08
4554973--4555051	10	7.4	10	71	17	52	56	1	2	39	1.21
4555094--4555142	22	2.2	23	85	3	64	38	2	4	55	1.31
4556148--4556196	23	2.1	24	88	3	73	30	26	18	24	1.98
4559405--4559530	54	2.3	55	88	1	191	30	20	24	24	1.99
4565267--4565326	22	2.7	23	92	2	95	20	30	21	28	1.98
4567949--4568070	55	2.2	55	84	5	158	31	21	21	26	1.98
4572355--4572518	82	2.0	84	86	2	233	41	5	7	45	1.56
4573001--4573060	27	2.2	28	84	3	77	51	3	21	23	1.62
4577423--4577584	83	2.0	83	88	2	245	41	5	11	41	1.64
4588019--4588191	81	2.1	81	84	4	224	31	19	23	24	1.98
4591080--4591151	33	2.2	33	85	4	94	12	25	31	30	1.92
4591080--4591165	32	2.7	31	80	8	93	11	29	31	27	1.92
4593405--4593436	10	3.1	10	91	8	55	18	31	31	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4595572--4595642	20	3.5	22	79	9	71	32	15	23	28	1.95
4595946--4596335	56	7.0	56	86	1	505	35	9	17	37	1.83
4604062--4604266	54	3.8	54	88	3	308	32	20	15	32	1.93
4604081--4604287	106	1.9	107	89	2	319	33	20	15	30	1.94
4606288--4606319	14	2.3	14	94	0	55	40	12	15	31	1.85
4608279--4608355	29	2.5	29	85	8	91	28	5	3	62	1.35
4608278--4608355	31	2.5	30	83	8	95	29	5	3	61	1.35
4608578--4608657	35	2.3	35	97	0	151	42	23	0	33	1.55
4608591--4608673	35	2.4	35	89	4	123	42	28	2	26	1.68
4608834--4609126	148	1.9	151	91	3	484	36	5	9	48	1.60
4609913--4609974	31	2.0	31	87	6	90	45	4	0	50	1.23
4609985--4610234	29	8.4	29	67	19	115	54	0	5	39	1.28
4609961--4610187	114	2.0	115	93	0	393	54	0	4	39	1.28
4610158--4610227	35	2.0	36	85	2	97	57	0	5	37	1.23
4611223--4611346	44	2.8	43	81	6	142	26	24	12	36	1.92
4611223--4611332	44	2.5	44	85	7	143	28	23	11	36	1.90
4612025--4612108	38	2.2	38	87	4	116	32	7	17	42	1.77
4615091--4615327	24	10.0	24	68	17	106	45	5	6	42	1.52
4615109--4615154	19	2.5	19	86	6	60	43	4	8	43	1.55
4615098--4615157	14	4.0	14	73	21	50	45	3	6	45	1.46
4615136--4615279	64	2.2	63	82	10	159	43	5	6	43	1.54
4615209--4615325	24	4.6	27	71	19	115	47	6	6	38	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4615303--4615354	18	2.9	17	80	5	59	44	1	7	46	1.43
4615835--4615895	22	2.8	22	80	7	63	44	3	8	44	1.50
4615889--4615973	27	3.3	26	76	11	77	51	2	3	42	1.31
4615850--4616044	51	3.9	51	81	9	190	47	3	6	43	1.45
4615868--4616055	24	7.6	24	69	17	118	47	3	6	43	1.45
4615854--4616055	11	18.4	11	66	26	58	46	3	6	43	1.47
4616003--4616068	14	5.0	14	80	14	70	43	3	12	40	1.57
4618233--4618279	24	2.0	24	82	0	58	31	2	40	25	1.68
4618978--4619089	55	2.1	52	91	5	179	12	7	18	61	1.53
4620379--4620510	42	3.2	42	90	1	203	22	4	19	53	1.64

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21