genome.fa.s9611.2.7.7.80.10.50.1000.16.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   

This is table  16  of  27  ( 3214 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)
4334479--4334606	64	2.0	64	100	0	256	48	7	14	29	1.71
4335151--4335204	2	27.5	2	96	3	101	51	0	0	48	1.00
4338744--4338814	18	3.9	17	80	10	79	28	32	19	19	1.97
4340714--4340762	18	2.7	18	87	3	62	40	18	14	26	1.89
4343136--4343183	19	2.5	20	82	3	62	29	12	6	52	1.63
4343161--4343206	23	2.0	24	83	12	60	41	8	6	43	1.61
4344439--4344478	21	1.9	21	94	0	71	15	30	37	17	1.90
4348073--4348127	26	2.1	26	100	0	110	25	21	14	38	1.92
4349830--4349860	15	2.1	15	100	0	62	25	12	25	35	1.92
4362389--4362440	28	1.9	26	85	14	70	30	0	3	65	1.10
4364147--4364172	13	2.0	13	100	0	52	30	15	7	46	1.74
4364295--4364469	90	2.0	89	87	3	253	44	7	11	36	1.69
4370183--4370207	4	6.2	4	100	0	50	76	0	0	24	0.80
4372282--4372330	25	2.0	25	91	0	80	63	12	0	24	1.29
4373641--4373682	21	2.0	21	86	9	59	64	2	0	33	1.07
4377737--4377775	18	2.0	20	90	9	64	28	0	0	71	0.86
4378143--4378183	10	4.1	10	84	12	57	31	29	0	39	1.57
4378309--4378640	111	3.0	110	94	1	567	35	7	11	45	1.68
4381153--4381212	29	2.0	31	90	6	97	35	6	16	41	1.75
4381277--4381342	19	3.5	19	89	0	78	37	9	13	39	1.77
4381429--4381468	20	2.0	20	95	0	71	25	17	30	27	1.97
4383512--4383564	25	2.1	25	82	6	63	58	5	7	28	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4383712--4383809	21	4.7	21	75	15	87	38	21	18	21	1.93
4383776--4383969	20	9.7	20	84	2	210	35	25	20	19	1.95
4384348--4384418	33	2.2	33	89	0	106	11	23	16	47	1.79
4384491--4384607	41	3.1	38	79	14	136	45	17	25	11	1.82
4384498--4384573	21	3.7	21	85	3	109	44	18	25	11	1.83
4384558--4384614	14	3.7	14	75	20	60	43	22	24	8	1.81
4384550--4384630	33	2.5	33	93	0	135	45	23	22	8	1.79
4384626--4384723	19	5.7	19	68	22	72	10	24	23	41	1.85
4384648--4384737	14	5.7	14	74	23	81	8	25	24	41	1.84
4384631--4384745	33	3.5	33	95	0	203	9	24	21	44	1.82
4386442--4386914	93	5.1	93	98	0	921	22	12	19	46	1.83
4386958--4387086	19	7.3	19	75	17	125	45	28	17	8	1.77
4386994--4387086	33	2.8	32	91	4	150	46	27	18	7	1.76
4386958--4387086	52	2.5	52	74	14	140	45	28	17	8	1.77
4387114--4387212	19	5.4	19	76	12	100	11	18	25	45	1.82
4387087--4387175	33	2.8	32	90	6	139	11	20	21	47	1.81
4389135--4389170	14	2.6	14	95	0	63	33	0	22	44	1.53
4389277--4389376	19	5.5	19	84	12	147	45	17	23	15	1.85
4389277--4389393	53	2.2	53	95	1	209	43	17	24	14	1.86
4389383--4389531	19	8.6	19	73	21	139	15	22	18	43	1.87
4389383--4389499	52	2.2	52	95	0	207	16	21	17	44	1.87
4389440--4389531	33	2.8	33	98	1	175	13	23	18	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4389459--4389513	14	3.6	14	73	21	56	10	23	20	45	1.82
4389590--4389687	19	5.4	19	84	13	143	45	17	22	14	1.84
4389590--4389703	53	2.2	53	98	1	221	44	17	23	14	1.85
4390593--4390842	20	12.5	20	84	3	261	19	18	24	37	1.94
4398390--4398810	209	2.0	211	98	0	819	31	25	18	24	1.98
4407448--4407497	22	2.1	23	85	10	66	50	2	0	48	1.12
4407456--4407506	23	2.2	23	83	13	61	56	0	0	43	0.99
4407454--4407509	24	2.4	23	80	16	62	57	0	0	42	0.99
4408497--4408543	24	2.0	23	84	16	60	61	0	6	31	1.21
4417390--4417476	44	2.0	44	93	0	147	28	12	18	40	1.87
4417691--4417721	15	2.1	15	93	0	53	48	3	0	48	1.17
4417715--4417750	18	1.9	19	88	5	56	36	0	5	58	1.22
4417706--4417811	41	2.5	42	81	11	112	41	0	2	54	1.21
4417775--4417824	21	2.4	20	78	15	57	48	0	2	50	1.12
4419355--4419385	2	15.5	2	100	0	62	0	51	0	48	1.00
4421210--4421244	16	2.2	16	90	10	54	0	5	25	68	1.11
4425773--4425912	69	2.0	69	98	0	271	42	17	7	32	1.78
4430819--4430880	18	3.5	18	70	18	58	30	0	4	64	1.14
4435225--4435340	60	1.9	60	83	0	151	27	23	22	26	1.99
4438598--4438673	40	1.9	40	100	0	152	21	17	46	15	1.84
4450897--4450945	22	2.2	22	88	0	71	16	12	16	55	1.70
4455187--4455233	15	3.4	14	77	8	51	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4458814--4458860	19	2.5	19	92	0	76	27	29	19	23	1.98
4460329--4460415	35	2.4	34	81	11	86	40	1	2	56	1.19
4460555--4460608	17	3.2	17	72	0	54	31	0	3	64	1.11
4462135--4462182	21	2.3	21	85	0	60	25	39	12	22	1.89
4462186--4462258	21	3.5	21	88	7	112	17	34	27	20	1.95
4462777--4462871	28	3.2	28	75	16	91	52	5	3	38	1.40
4462778--4462878	34	3.2	32	72	22	95	53	5	2	37	1.41
4462995--4463024	15	2.0	15	100	0	60	33	6	13	46	1.69
4463686--4464179	128	3.8	128	91	1	767	33	20	23	22	1.97
4469349--4469534	21	9.0	21	73	14	145	21	20	23	34	1.96
4469355--4469531	42	4.3	42	94	1	313	20	19	23	35	1.96
4470230--4470284	21	2.8	20	77	5	58	32	23	20	23	1.98
4470285--4470390	41	2.7	40	74	24	107	29	16	23	30	1.97
4470743--4471395	325	2.0	322	91	5	1070	41	3	4	50	1.39
4478223--4478252	3	10.0	3	100	0	60	0	33	0	66	0.92
4481168--4481216	24	2.0	24	84	7	64	48	0	4	46	1.20
4485300--4485501	104	1.9	104	100	0	404	42	4	24	27	1.75
4485485--4485727	6	40.3	6	85	0	180	45	0	53	0	1.09
4485485--4485727	9	26.9	9	87	0	180	45	0	53	0	1.09
4494326--4494454	59	2.2	59	97	0	240	35	24	10	29	1.88
4495136--4495202	32	2.1	32	85	0	89	19	8	40	31	1.82
4498097--4498129	15	2.2	15	94	0	57	51	6	0	42	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4498502--4498535	16	2.1	16	94	0	59	32	8	26	32	1.87
4507391--4507442	24	2.2	24	82	0	59	15	11	19	53	1.71
4507405--4507465	24	2.5	24	83	0	77	13	11	19	55	1.67
4508129--4508187	16	3.7	16	88	0	91	8	10	23	57	1.59
4511381--4511473	21	4.4	21	68	11	57	21	29	25	23	1.99
4515900--4516065	85	2.0	83	91	4	271	24	23	6	45	1.76
4520387--4520445	2	29.5	2	100	0	118	49	0	0	50	1.00
4520891--4520978	35	2.5	35	96	0	167	37	4	6	51	1.49
4530645--4530786	58	2.4	57	76	13	137	33	15	27	23	1.95
4535726--4535751	3	8.7	3	100	0	52	0	34	0	65	0.93
4538149--4538258	29	3.8	29	93	2	186	17	20	16	46	1.84
4539884--4539951	22	3.5	19	68	26	52	50	2	1	45	1.26
4539931--4540030	21	4.5	21	67	18	60	46	1	1	52	1.14
4539961--4540019	29	2.0	29	87	12	86	45	1	0	52	1.10
4540073--4540169	21	4.8	20	71	22	62	39	2	4	54	1.31
4540084--4540202	39	3.2	39	79	12	110	41	3	1	53	1.27
4540115--4540170	17	3.0	17	76	19	58	37	3	0	58	1.15
4540115--4540169	14	4.1	14	75	13	62	36	3	0	60	1.15
4540125--4540185	25	2.4	26	72	8	63	45	1	0	52	1.10
4540106--4540297	69	2.7	69	74	16	178	44	3	2	49	1.31
4540106--4540240	36	3.8	33	77	14	112	44	2	0	51	1.21
4540106--4540240	72	1.9	71	82	13	172	44	2	0	51	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4540150--4540264	33	3.4	32	76	17	108	46	4	0	48	1.28
4540432--4540507	38	2.0	38	94	0	134	46	22	11	19	1.82
4541160--4541234	2	37.5	2	100	0	150	49	0	0	50	1.00
4544446--4544480	3	12.0	3	93	6	63	34	0	0	65	0.93
4547863--4547893	15	2.1	15	100	0	62	32	6	29	32	1.83
4558285--4558354	31	2.2	29	77	20	70	47	0	4	48	1.21
4558385--4558435	23	2.2	23	82	0	57	45	1	1	50	1.24
4558546--4558639	29	3.2	29	71	7	82	48	0	0	51	1.00
4558568--4558618	23	2.2	23	89	6	77	43	0	0	56	0.99
4558611--4558648	19	2.0	20	89	5	60	57	0	0	42	0.98

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