genome.fa.s8620.2.7.7.80.10.50.1000.24.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   

This is table  24  of  64  ( 7674 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)
4778593--4779153	198	2.9	186	81	10	589	37	13	17	31	1.89
4780155--4780198	20	2.2	20	88	8	63	43	29	0	27	1.55
4780173--4780238	27	2.4	27	92	0	105	45	27	0	27	1.54
4781682--4781718	16	2.3	17	90	9	60	72	5	0	21	1.04
4781905--4782241	184	1.8	183	80	13	408	38	10	9	42	1.71
4782630--4782676	23	2.0	23	100	0	94	40	12	8	38	1.74
4787745--4787801	28	2.0	28	100	0	114	28	5	28	38	1.78
4791153--4791198	23	2.0	23	95	0	83	26	19	21	32	1.97
4799228--4799286	31	2.0	29	87	12	84	27	15	6	50	1.68
4800675--4800718	18	2.4	18	84	3	52	15	31	18	34	1.92
4802412--4802476	19	3.4	19	82	0	85	23	13	15	47	1.81
4802392--4802465	38	1.9	38	86	0	103	21	14	17	45	1.84
4803524--4803656	20	6.7	20	94	0	230	17	28	24	30	1.97
4803769--4803808	20	1.9	22	90	10	66	37	40	10	12	1.77
4805588--4805637	19	2.6	19	100	0	100	40	4	20	36	1.71
4806772--4806811	21	1.9	21	94	0	71	32	10	7	50	1.64
4807033--4807304	20	12.8	21	74	14	136	22	29	20	27	1.99
4807033--4807129	41	2.4	41	98	0	185	25	34	18	21	1.96
4807149--4807301	40	3.8	40	92	0	243	18	26	24	30	1.98
4807149--4807301	60	2.5	60	92	0	252	18	26	24	30	1.98
4807668--4807737	34	2.1	32	84	5	86	31	15	27	25	1.96
4810062--4810154	46	2.1	46	84	8	120	24	21	9	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4810169--4810591	45	10.5	44	69	22	259	27	25	11	34	1.91
4810214--4810346	34	3.6	34	69	21	106	29	22	12	36	1.90
4810122--4810390	78	3.4	78	89	2	396	28	24	11	35	1.91
4810169--4810591	202	2.1	201	88	2	625	27	25	11	34	1.91
4810416--4810625	34	5.6	34	71	24	147	29	25	10	34	1.90
4810254--4810513	124	2.1	122	89	1	394	26	26	12	33	1.92
4810484--4810546	33	1.9	33	87	6	92	28	25	11	34	1.90
4810371--4810652	79	3.6	79	91	2	426	27	26	10	35	1.90
4810528--4810652	34	3.0	44	71	25	137	29	26	9	34	1.88
4811142--4811214	21	3.6	21	76	5	71	21	28	17	31	1.97
4811085--4811266	94	1.9	93	86	3	258	24	24	17	34	1.96
4812410--4812614	102	2.0	102	98	1	394	42	23	7	25	1.81
4812768--4812811	2	22.0	2	100	0	88	50	0	0	50	1.00
4813326--4813464	36	3.9	36	85	3	183	19	26	19	34	1.96
4813326--4813468	72	2.0	71	91	1	232	18	26	18	35	1.95
4813451--4813516	24	2.8	24	90	0	105	10	28	1	59	1.40
4816861--4816956	45	2.1	45	81	7	106	20	22	10	45	1.81
4816989--4817054	34	2.0	32	82	8	80	27	24	12	36	1.91
4816908--4817373	79	5.9	79	90	0	713	28	24	12	34	1.91
4816999--4817441	34	11.8	34	74	19	339	28	23	12	35	1.91
4816908--4817486	158	3.8	156	88	3	813	28	24	12	35	1.91
4817159--4817486	112	2.9	111	72	13	274	28	23	12	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4817927--4817982	22	2.5	22	94	0	94	30	16	16	37	1.90
4817978--4818152	95	1.8	95	87	0	260	25	25	15	34	1.95
4818690--4818714	3	8.3	3	100	0	50	64	0	36	0	0.94
4820811--4820887	20	4.0	20	69	26	67	19	33	27	19	1.96
4820920--4820960	21	1.9	22	90	5	66	19	34	24	21	1.97
4822193--4822240	19	2.5	20	82	3	62	52	6	12	29	1.63
4823653--4823728	20	4.1	20	73	22	83	21	35	27	15	1.94
4823839--4823880	21	2.0	21	90	9	68	23	14	28	33	1.94
4823910--4823949	20	1.9	21	85	10	55	37	37	10	15	1.80
4825083--4825130	19	2.5	20	89	3	71	47	6	16	29	1.71
4826170--4826200	15	2.1	15	100	0	62	22	6	12	58	1.58
4826596--4826671	20	4.1	20	74	22	92	19	35	28	15	1.93
4826783--4826824	21	2.0	21	90	9	68	23	19	28	28	1.98
4829709--4829750	21	2.0	21	90	9	68	23	19	28	28	1.98
4832444--4832520	20	4.1	20	70	24	76	19	33	28	18	1.95
4832704--4832743	20	1.9	21	85	10	55	37	37	10	15	1.80
4833599--4833629	15	2.0	16	93	6	55	35	12	0	51	1.40
4835519--4835591	26	3.0	26	69	22	86	20	21	10	46	1.81
4835583--4836120	34	13.9	34	68	23	225	27	25	11	35	1.91
4835574--4836145	79	7.3	79	88	1	860	27	25	11	35	1.91
4835944--4836145	34	5.0	43	67	27	156	27	25	12	34	1.92
4836638--4836690	22	2.5	21	81	6	63	28	20	16	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4836569--4836783	95	2.3	95	81	6	242	24	23	15	36	1.94
4841343--4841409	34	2.1	32	86	8	91	28	22	11	37	1.90
4841914--4841969	22	2.7	20	76	10	58	26	26	16	30	1.96
4841821--4842044	95	2.4	95	86	1	306	25	25	15	33	1.95
4843401--4843570	84	2.0	84	95	0	304	35	22	10	31	1.88
4846414--4846467	21	2.6	21	84	0	81	24	14	11	50	1.75
4861102--4861142	21	2.0	20	85	4	55	21	26	4	46	1.72
4862581--4862610	12	2.5	12	88	0	51	66	3	23	6	1.30
4866400--4866480	41	2.0	41	95	0	144	51	7	4	35	1.51
4867810--4867863	28	1.9	28	96	0	99	20	16	5	57	1.59
4870644--4870690	19	2.5	20	80	19	57	76	4	10	8	1.13
4870656--4870698	19	2.3	19	84	8	52	79	6	4	9	1.06
4872426--4872467	20	2.3	18	81	18	52	30	14	28	26	1.95
4872408--4872468	22	3.0	20	84	11	79	31	14	27	26	1.95
4872336--4872555	94	2.3	94	83	4	257	34	15	24	25	1.95
4872881--4873396	56	9.2	56	85	1	658	37	17	18	25	1.93
4872881--4873375	225	2.2	224	86	1	695	38	17	18	26	1.92
4877994--4878198	94	2.2	94	84	3	252	35	14	23	25	1.93
4878536--4879152	56	10.9	56	84	6	778	36	18	19	24	1.95
4883910--4883939	16	1.9	15	93	6	51	30	0	0	70	0.88
4886743--4886834	39	2.4	39	94	0	157	42	27	5	25	1.76
4886743--4886808	22	3.2	21	67	20	59	43	27	3	25	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4892018--4892155	32	4.4	32	90	1	190	26	17	22	33	1.96
4895277--4895342	2	33.0	2	100	0	132	50	0	0	50	1.00
4895914--4896016	32	3.2	32	88	0	161	28	17	21	33	1.96
4896400--4896491	32	2.9	32	93	0	148	27	19	21	31	1.97
4895530--4896489	473	2.0	476	90	2	1509	35	10	21	32	1.87
4901408--4901528	39	3.1	39	89	4	181	46	27	4	22	1.70
4904645--4904741	50	1.9	50	100	0	194	44	9	22	23	1.82
4911128--4911154	5	5.4	5	100	0	54	81	0	0	18	0.69
4911271--4911471	38	5.3	38	77	15	150	46	6	3	42	1.49
4911291--4911471	75	2.4	71	83	9	211	46	7	3	41	1.49
4911337--4911537	74	2.7	72	81	10	201	44	8	3	43	1.53
4912633--4912680	20	2.4	20	89	0	69	22	29	22	25	1.99
4915789--4915828	18	2.2	18	90	0	62	52	27	2	17	1.57
4916000--4916089	20	4.5	20	92	0	144	31	22	20	26	1.98
4916128--4916205	20	3.9	20	86	0	102	12	16	25	44	1.83
4917683--4917743	21	2.9	21	73	7	61	22	14	37	24	1.92
4918251--4918294	20	2.2	20	91	0	70	47	22	13	15	1.81
4918281--4918348	20	3.4	20	83	0	91	33	25	22	19	1.97
4918354--4918392	19	2.0	20	90	5	62	51	20	15	12	1.76
4918397--4918469	33	2.2	34	85	2	94	17	21	16	43	1.87
4918464--4918512	20	2.5	20	89	0	71	18	18	26	36	1.94
4920409--4920464	20	2.8	20	86	0	76	51	23	14	10	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4920880--4920922	22	2.0	21	86	8	61	20	18	41	18	1.90
4921090--4921134	20	2.2	20	100	0	90	24	20	31	24	1.98
4921241--4921277	19	1.9	19	88	0	56	24	16	27	32	1.96
4922977--4923082	23	4.7	23	87	4	146	29	26	21	22	1.99
4922964--4923082	46	2.7	45	84	8	147	31	26	20	22	1.98
4929649--4929731	23	3.7	22	76	9	80	30	27	20	21	1.98
4938277--4938353	25	3.1	25	83	9	79	25	22	28	23	1.99
4938307--4938362	24	2.3	25	90	3	87	30	26	23	19	1.98
4938546--4938616	31	2.3	31	90	2	108	33	25	2	38	1.71
4938985--4939104	63	1.9	63	82	3	152	25	20	20	35	1.96

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64