genome.fa.s7957.2.7.7.80.10.50.1000.24.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   34   35   36   37   38   39   40   41   42   43   

This is table  24  of  43  ( 5063 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)
4933223--4933389	22	7.6	22	67	18	80	22	5	1	70	1.18
4934501--4934570	29	2.4	29	85	0	86	35	8	2	52	1.47
4934521--4934596	29	2.6	29	87	4	98	42	5	2	50	1.39
4934457--4934616	60	2.7	60	78	9	157	37	6	2	53	1.40
4934543--4934616	31	2.5	31	77	4	80	39	5	2	52	1.38
4934623--4934684	30	2.1	30	84	0	79	40	11	3	45	1.56
4934688--4934772	29	2.9	29	81	13	95	36	5	0	57	1.23
4934765--4934867	31	3.4	30	70	13	95	57	1	5	34	1.34
4935871--4935918	20	2.4	20	82	6	62	33	0	4	62	1.14
4937379--4937415	19	1.9	19	94	0	65	35	18	5	40	1.74
4938537--4938614	21	3.7	21	76	10	77	16	24	24	34	1.95
4938514--4938605	42	2.2	43	86	5	125	19	20	28	31	1.97
4938537--4938631	43	2.2	42	83	5	111	18	23	26	31	1.98
4938645--4938724	20	4.0	20	81	10	83	27	20	21	31	1.98
4938648--4938725	41	1.9	41	89	0	120	28	17	23	30	1.97
4940849--4940922	37	2.0	36	84	7	96	48	4	1	45	1.29
4942815--4942865	14	3.6	14	97	2	93	7	21	43	27	1.80
4944979--4945040	21	3.0	21	83	4	81	19	24	19	37	1.94
4944981--4945041	20	3.0	21	82	4	79	21	24	19	34	1.96
4945074--4945113	21	1.9	21	89	0	62	32	25	15	27	1.95
4945072--4945119	21	2.3	21	77	0	60	29	25	12	33	1.92
4946227--4946291	21	3.2	20	73	6	67	36	20	24	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4946241--4946363	21	5.9	21	82	9	153	29	20	23	26	1.99
4946238--4946365	42	3.1	42	84	3	179	32	19	22	25	1.98
4948688--4948721	17	2.0	17	88	0	50	41	11	2	44	1.56
4950793--4950946	63	2.4	62	83	9	179	32	19	22	25	1.97
4951833--4951878	23	2.0	23	91	0	74	21	23	26	28	1.99
4951401--4951855	149	3.0	149	98	0	874	28	15	20	35	1.93
4957970--4958007	19	2.0	20	94	5	69	28	15	28	26	1.96
4957975--4958133	63	2.5	62	86	4	203	32	19	22	26	1.97
4958589--4959035	147	3.0	147	96	0	831	28	15	20	35	1.93
4959013--4959058	23	2.0	23	91	0	74	21	23	26	28	1.99
4960146--4960382	84	2.8	84	85	3	298	41	19	2	35	1.67
4960146--4960381	29	8.3	29	84	5	250	41	19	2	36	1.67
4967853--4968089	84	2.8	84	85	4	316	40	19	2	36	1.67
4967853--4968088	56	4.2	57	85	9	313	41	19	2	36	1.67
4967853--4968088	29	8.3	29	85	7	281	41	19	2	36	1.67
4972615--4973162	138	4.0	138	85	1	670	26	17	27	28	1.98
4972615--4973162	277	2.0	277	84	2	708	26	17	27	28	1.98
4973171--4973257	37	2.4	37	86	0	111	39	12	19	28	1.88
4973206--4973339	67	2.0	67	89	1	207	38	13	19	29	1.90
4973241--4973438	102	1.9	103	90	3	319	39	13	16	30	1.87
4973341--4973650	168	1.9	167	84	3	426	38	11	16	33	1.86
4978430--4978494	23	2.8	23	80	2	76	26	24	27	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4979071--4979227	64	2.4	66	83	10	189	26	17	20	35	1.95
4985346--4985412	23	2.9	23	88	2	89	26	23	28	20	1.99
4986025--4986127	45	2.3	45	85	6	129	28	13	21	36	1.91
4990609--4990634	2	13.0	2	100	0	52	50	0	0	50	1.00
4992692--4992764	3	25.0	3	78	10	80	60	5	0	34	1.20
4992692--4992778	6	17.4	5	75	22	53	58	4	1	35	1.26
4993167--4993216	3	16.3	3	91	4	82	64	0	2	34	1.05
4994610--4994637	13	2.2	13	100	0	56	25	7	32	35	1.83
5005676--5005705	2	15.0	2	100	0	60	50	0	0	50	1.00
5008148--5008216	30	2.3	30	89	2	102	30	17	8	43	1.79
5011434--5011540	31	3.3	31	75	13	90	37	7	8	46	1.62
5011438--5011509	37	1.9	37	91	0	117	37	9	5	47	1.60
5012045--5012172	60	2.1	60	80	8	145	36	17	16	29	1.92
5018549--5018623	37	2.0	37	97	0	141	28	14	13	44	1.83
5019373--5019430	13	4.8	13	83	14	70	18	50	20	10	1.76
5019371--5019437	18	3.8	17	75	23	59	17	49	20	11	1.79
5019406--5019440	17	2.1	17	100	0	70	17	48	22	11	1.79
5019386--5019435	22	2.2	23	92	3	84	20	52	20	8	1.71
5019449--5019516	29	2.3	29	84	2	82	22	10	27	39	1.86
5026572--5026642	17	4.1	17	87	1	97	21	46	19	12	1.83
5026572--5026642	34	2.1	35	91	2	117	21	46	19	12	1.83
5030558--5030587	12	2.5	12	88	0	51	26	46	13	13	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5031971--5032008	18	2.1	18	90	0	58	76	5	2	15	1.08
5031991--5032042	10	4.9	11	81	9	72	69	9	1	19	1.26
5031974--5032038	10	6.6	10	81	10	71	72	9	3	15	1.23
5031991--5032042	21	2.5	21	90	0	86	69	9	1	19	1.26
5034115--5034256	72	2.0	72	95	0	257	47	10	9	31	1.71
5038603--5038637	3	11.0	3	88	11	52	31	0	0	68	0.90
5038605--5038637	7	5.0	7	96	3	52	30	0	0	69	0.88
5038603--5038637	17	2.2	16	90	10	54	31	0	0	68	0.90
5039830--5040325	181	2.7	181	89	1	762	40	15	17	27	1.89
5042712--5042773	21	3.0	21	97	0	115	41	14	29	14	1.85
5044596--5044644	19	2.6	19	96	0	89	32	2	10	55	1.45
5045116--5045157	21	2.0	21	90	0	66	26	16	11	45	1.82
5051485--5051541	24	2.6	21	74	15	60	29	22	19	28	1.98
5053805--5053834	15	2.0	15	93	0	51	36	0	43	20	1.52
5055095--5055665	200	2.8	200	85	4	738	37	14	16	31	1.89
5055474--5055844	179	2.1	179	84	5	473	37	13	16	33	1.87
5055275--5055999	379	1.9	380	85	4	1000	37	13	15	33	1.87
5057473--5057529	3	19.0	3	88	0	87	38	0	33	28	1.57
5058277--5058323	21	2.2	21	92	0	76	19	29	25	25	1.98
5059073--5060227	201	5.8	198	81	5	1209	38	14	15	31	1.88
5059073--5060227	386	2.9	389	84	5	1440	38	14	15	31	1.88
5060562--5060600	20	2.0	20	89	0	60	30	33	15	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5068956--5068994	20	2.0	20	89	0	60	30	33	15	20	1.94
5072578--5072649	19	3.8	19	98	0	135	25	26	18	30	1.98
5072679--5072725	19	2.6	18	87	9	69	23	21	21	34	1.97
5080301--5080998	197	3.5	200	84	6	845	39	13	15	30	1.87
5081090--5081133	23	1.9	23	90	0	70	34	18	4	43	1.70
5081016--5081177	87	1.9	87	92	0	270	33	13	9	42	1.77
5083409--5083584	75	2.3	75	84	0	226	42	10	13	34	1.77
5083559--5083630	23	3.1	23	87	0	99	36	16	13	33	1.89
5083753--5083788	17	2.1	17	94	0	63	50	5	0	44	1.25
5086313--5086342	15	1.9	16	93	6	53	46	3	13	36	1.60
5090265--5090301	17	2.2	17	90	0	56	64	5	2	27	1.28
5090446--5090508	29	2.2	29	82	0	72	36	3	6	53	1.42
5094187--5094249	2	31.0	2	96	3	117	49	0	1	49	1.10
5094517--5094574	3	19.7	3	92	3	73	39	0	0	60	0.97
5095899--5095958	23	2.6	23	86	0	84	40	10	18	31	1.84
5095772--5096103	158	2.1	158	92	0	547	39	12	14	32	1.84
5096058--5096103	23	2.0	24	82	4	58	30	13	21	34	1.91
5098184--5099008	200	4.1	200	91	0	1294	32	15	14	37	1.88
5099085--5099135	20	2.6	20	75	12	52	27	11	5	54	1.59
5100354--5100417	24	2.7	24	85	4	85	50	10	3	35	1.54
5102950--5102997	15	2.9	16	76	11	53	29	6	37	27	1.81
5103869--5103902	13	2.5	13	95	4	59	11	17	0	70	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5106574--5107230	183	3.6	183	87	2	915	27	15	12	43	1.84
5108830--5108916	26	3.2	28	78	15	76	44	1	0	54	1.07
5108927--5109012	14	6.5	14	68	23	53	53	2	1	43	1.21
5114048--5114085	19	2.1	19	95	5	69	15	15	34	34	1.90
5121439--5121475	19	1.9	19	100	0	74	37	5	27	29	1.79
5122061--5122115	26	2.1	26	100	0	110	41	25	14	18	1.88
5122331--5122376	17	2.7	17	83	6	58	58	2	0	39	1.10
5122760--5122794	16	2.1	17	89	10	54	60	5	0	34	1.21
5123005--5123066	29	2.1	29	91	5	99	43	12	14	29	1.83
5123064--5123124	18	3.4	18	95	0	113	55	4	8	31	1.50

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   34   35   36   37   38   39   40   41   42   43