genome.fa.s8209.2.7.7.80.10.50.1000.17.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: 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  17  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)
4037237--4037266	14	2.1	14	100	0	60	0	16	0	83	0.65
4037280--4037307	8	3.5	8	100	0	56	0	10	0	89	0.49
4037237--4037307	14	5.0	13	73	13	52	2	14	2	80	0.94
4037608--4037648	22	1.9	21	85	5	55	24	2	31	41	1.68
4038897--4038941	23	2.0	23	82	8	56	53	2	4	40	1.33
4040648--4040698	21	2.5	21	80	3	59	29	17	11	41	1.85
4040689--4040742	20	2.7	20	79	2	63	40	24	14	20	1.90
4040714--4040901	20	9.4	20	76	5	184	40	23	16	18	1.90
4040746--4040900	60	2.6	58	85	4	211	41	23	16	19	1.90
4040689--4040900	40	5.3	40	78	8	191	41	23	15	19	1.89
4040770--4040981	80	2.7	80	80	4	196	41	22	16	20	1.90
4040936--4040981	20	2.2	21	96	3	85	45	17	19	17	1.85
4041335--4041382	21	2.3	21	85	7	62	18	16	16	47	1.82
4046164--4046359	102	1.9	102	84	2	259	38	10	16	34	1.83
4046252--4046484	67	3.5	67	82	8	246	37	10	17	33	1.85
4046322--4046492	67	2.6	66	90	2	263	40	11	16	32	1.83
4048706--4048787	25	3.3	24	76	17	78	2	20	0	76	0.89
4048713--4048787	17	4.4	17	75	12	82	2	20	0	77	0.89
4048706--4048787	30	2.8	29	78	16	89	2	20	0	76	0.89
4048706--4048763	31	1.9	31	89	6	93	1	18	0	79	0.82
4056917--4056990	31	2.4	30	86	2	112	36	24	2	36	1.70
4056955--4056998	23	2.0	21	82	8	52	34	20	4	40	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4057319--4057357	17	2.2	17	86	9	51	17	5	7	69	1.32
4057818--4057875	12	4.9	11	75	10	53	44	0	8	46	1.34
4057804--4058192	37	10.2	36	74	19	240	45	3	6	44	1.45
4057806--4058185	71	5.0	72	75	16	281	45	3	6	45	1.45
4058018--4058051	2	17.5	2	93	6	61	52	0	0	47	1.00
4057987--4058085	52	1.9	49	88	8	144	46	2	5	46	1.36
4057949--4058125	87	2.0	87	87	5	257	44	2	5	46	1.41
4057907--4058135	127	1.8	123	86	9	327	45	2	5	46	1.40
4058038--4058192	40	4.2	39	77	16	129	46	5	5	42	1.50
4058036--4058192	77	2.1	73	87	7	217	46	5	5	42	1.49
4058037--4058194	36	4.2	36	79	13	169	46	5	5	43	1.49
4058058--4058213	77	2.0	77	82	7	192	48	5	5	40	1.51
4058204--4058253	26	1.9	25	88	8	73	50	0	0	50	1.00
4058307--4058339	13	2.6	13	90	4	50	27	3	0	69	1.03
4058280--4058351	23	2.9	25	75	22	71	23	5	2	68	1.24
4059375--4059431	14	3.8	14	76	19	53	15	3	3	77	1.05
4059379--4059456	27	2.9	27	80	14	90	15	5	2	76	1.06
4059375--4059456	31	2.6	30	83	12	94	15	4	2	76	1.06
4063621--4063820	95	2.1	96	81	1	240	34	18	16	31	1.93
4064989--4065430	80	5.5	82	78	7	431	31	22	19	26	1.98
4064989--4065430	84	5.5	81	77	8	393	31	22	19	26	1.98
4065413--4065448	18	2.0	18	94	0	63	33	16	19	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4065332--4065531	101	2.0	98	97	2	373	32	23	16	28	1.96
4065431--4065945	84	6.2	84	79	3	549	31	23	18	26	1.97
4065530--4066032	168	3.0	162	73	11	412	32	22	18	26	1.97
4066596--4066984	38	10.2	38	80	12	433	46	3	6	43	1.47
4066596--4066984	152	2.5	152	87	8	540	46	3	6	43	1.47
4066948--4067018	29	2.4	30	83	2	90	49	4	5	40	1.46
4066979--4067061	34	2.3	36	84	14	109	48	1	2	48	1.22
4067069--4067110	22	1.9	22	85	9	59	21	0	2	76	0.90
4068232--4068315	5	16.6	5	72	18	50	16	4	3	75	1.12
4068232--4068279	20	2.5	20	89	3	71	16	4	2	77	1.03
4068231--4068321	14	6.4	14	69	25	57	16	6	3	73	1.17
4070966--4071001	2	18.5	2	94	5	65	52	0	0	47	1.00
4070962--4071026	6	9.8	6	90	9	60	60	0	0	40	0.97
4070962--4071031	18	3.5	19	78	20	72	58	0	1	40	1.07
4080361--4080444	32	2.6	32	84	0	114	33	21	15	29	1.94
4082653--4082678	6	4.3	6	100	0	52	50	0	34	15	1.45
4088855--4088901	20	2.4	19	80	20	53	21	21	23	34	1.97
4090733--4090775	12	3.6	12	77	0	50	30	2	25	41	1.68
4090733--4090806	24	3.1	23	82	1	85	28	6	25	39	1.81
4091391--4091460	29	2.4	29	90	0	104	51	0	37	11	1.38
4092016--4092124	39	2.8	39	81	5	141	53	11	11	24	1.68
4092143--4092187	21	2.1	21	83	0	54	51	8	11	28	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4092322--4092346	7	3.6	7	100	0	50	40	0	0	60	0.97
4093156--4093227	27	2.6	28	88	6	85	56	9	0	33	1.32
4093172--4093227	27	2.1	27	96	0	103	57	8	0	33	1.30
4093258--4093290	3	11.0	3	93	0	57	69	0	0	30	0.88
4106450--4106501	20	2.6	20	96	0	95	32	15	26	25	1.95
4109647--4109711	24	2.7	24	76	9	78	20	10	10	58	1.61
4109655--4109682	10	2.8	10	100	0	56	21	10	7	60	1.53
4109918--4109989	23	3.1	23	75	11	74	13	11	15	59	1.61
4111237--4111355	34	3.4	34	81	11	150	47	6	17	28	1.73
4111250--4111370	34	3.4	37	82	7	160	46	7	16	29	1.74
4111237--4111431	36	5.5	34	75	10	160	44	7	15	32	1.74
4111244--4111429	71	2.6	71	83	8	209	45	7	15	31	1.74
4125250--4125425	29	6.3	29	79	9	161	45	17	1	35	1.59
4126781--4126809	14	2.1	14	100	0	58	48	6	20	24	1.74
4126916--4126950	18	1.9	18	100	0	70	57	8	17	17	1.64
4127936--4127999	2	32.0	2	100	0	128	50	0	0	50	1.00
4130094--4130177	23	3.7	23	80	1	89	19	25	32	23	1.97
4146262--4146435	29	6.1	29	77	10	146	45	16	1	36	1.57
4146267--4146433	83	2.0	84	81	5	196	47	13	1	37	1.54
4147316--4147344	2	14.5	2	100	0	58	51	0	0	48	1.00
4153309--4153366	21	2.8	21	72	0	53	31	8	17	43	1.79
4153365--4153417	21	2.5	21	90	0	88	18	16	26	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4159367--4159399	14	2.4	14	100	0	66	48	0	24	27	1.51
4159417--4159464	19	2.5	19	96	0	87	33	0	29	37	1.58
4159420--4159465	5	9.6	5	76	9	51	32	0	28	39	1.57
4160467--4160526	21	2.9	21	89	0	93	21	16	20	41	1.90
4160456--4160535	21	3.8	21	81	0	70	26	13	16	43	1.85
4160559--4160605	21	2.2	21	96	0	85	14	21	29	34	1.93
4161913--4162176	60	4.4	60	78	5	225	39	17	10	31	1.84
4169554--4169618	8	7.6	9	70	16	57	72	4	1	21	1.11
4171087--4171130	3	14.0	3	86	9	61	65	0	2	31	1.05
4171080--4171130	16	3.2	15	83	5	57	62	0	1	35	1.06
4171087--4171130	19	2.3	19	96	0	79	65	0	2	31	1.05
4171261--4172721	151	9.7	151	94	1	2513	34	23	19	22	1.96
4171261--4172721	76	19.3	76	94	1	2505	34	23	19	22	1.96
4173403--4173457	22	2.5	22	90	0	92	40	14	9	36	1.78
4173818--4173946	65	2.0	63	96	3	240	23	17	19	40	1.91
4173885--4174035	54	2.9	52	83	5	173	24	19	16	39	1.91
4176110--4176333	114	2.0	114	93	0	385	29	20	16	33	1.95
4178293--4178351	23	2.6	22	89	7	84	0	15	0	84	0.62
4178289--4178383	11	8.6	11	74	12	88	2	15	2	80	0.91
4178295--4178357	14	4.2	15	80	17	69	0	15	0	84	0.63
4181179--4181217	14	2.8	14	85	11	53	58	7	17	15	1.59
4183285--4183319	15	2.2	16	90	5	54	74	2	5	17	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4184054--4184087	18	1.9	17	88	5	50	44	0	0	55	0.99
4184346--4184785	221	2.0	218	96	3	812	47	8	10	33	1.67
4185725--4185783	3	19.0	3	89	6	91	66	0	1	32	1.02
4185725--4185783	28	2.1	28	90	6	93	66	0	1	32	1.02
4187240--4187400	64	2.5	63	85	7	191	34	18	21	26	1.96
4187717--4187752	18	2.0	18	88	0	54	30	8	16	44	1.77
4188751--4189066	149	2.1	149	95	1	571	27	15	21	36	1.93
4189033--4189078	23	2.0	23	91	0	74	21	23	26	28	1.99
4192238--4192398	64	2.5	63	85	7	191	34	18	21	26	1.96
4192715--4192750	18	2.0	18	88	0	54	30	8	16	44	1.77

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