genome.fa.s8082.2.7.7.80.10.50.1000.23.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  23  of  28  ( 3312 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)
4599668--4599799	26	5.5	26	69	20	126	43	14	21	20	1.87
4599635--4599828	46	4.2	46	91	0	307	44	13	20	21	1.85
4599648--4599814	20	7.4	20	68	21	91	43	12	22	21	1.86
4606059--4606108	20	2.5	20	100	0	100	34	12	28	26	1.92
4606609--4606929	46	7.0	46	88	0	435	44	12	21	22	1.84
4609624--4609737	42	2.7	42	87	0	165	21	16	24	37	1.93
4609626--4609742	21	5.6	21	79	0	135	21	16	25	36	1.94
4609703--4609770	21	3.0	23	87	4	86	22	13	25	39	1.90
4617964--4618000	19	2.0	19	89	5	58	32	13	27	27	1.94
4618134--4618727	293	2.0	295	95	1	1066	31	10	20	37	1.87
4619052--4619140	21	4.2	21	74	5	81	23	16	21	38	1.93
4619132--4619196	23	2.8	23	86	4	69	21	21	24	32	1.98
4626393--4626421	12	2.4	12	100	0	58	0	41	31	27	1.56
4639450--4639755	152	2.0	153	95	3	555	17	28	20	33	1.96
4641542--4641597	22	2.5	22	94	0	103	41	7	17	33	1.77
4645052--4645102	26	2.0	26	88	3	77	39	9	19	31	1.84
4646560--4646598	9	4.3	9	86	0	60	61	0	28	10	1.28
4654829--4654881	25	2.1	25	89	0	79	16	24	45	13	1.83
4655429--4655489	30	2.1	29	82	11	72	13	3	4	78	1.03
4655433--4655480	19	2.5	19	79	3	60	12	2	6	79	1.01
4655429--4655497	20	3.4	20	76	13	54	13	2	5	78	1.05
4661006--4661234	57	4.1	57	81	7	272	30	10	19	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4661479--4661614	40	3.5	39	85	3	184	32	14	15	37	1.88
4661641--4661763	60	2.1	59	83	7	151	31	26	16	25	1.96
4661824--4661938	39	2.9	39	94	0	194	33	16	16	33	1.92
4661874--4661960	22	4.2	22	68	24	80	39	16	16	28	1.89
4661835--4662039	100	2.0	101	89	4	317	35	15	16	33	1.89
4661935--4662055	39	3.1	39	81	10	149	33	14	15	35	1.89
4661874--4661999	61	2.1	61	90	0	198	38	15	15	30	1.89
4663827--4663865	18	2.1	19	86	13	55	7	2	7	82	0.94
4678935--4679001	28	2.4	28	89	0	107	35	0	16	47	1.47
4682319--4682417	42	2.4	42	91	0	153	20	19	6	54	1.65
4684305--4684330	13	2.0	13	100	0	52	30	7	0	61	1.24
4684385--4684428	20	2.0	22	87	12	65	25	0	4	70	1.06
4687746--4687801	2	28.0	2	100	0	112	50	0	0	50	1.00
4687995--4688200	55	3.7	55	84	5	256	28	22	15	33	1.94
4687995--4688200	110	1.9	110	86	6	301	28	22	15	33	1.94
4688003--4688247	110	2.2	110	84	5	298	28	22	15	33	1.95
4688272--4689290	54	18.9	54	89	1	1454	23	23	16	35	1.95
4692417--4692504	17	5.1	17	75	19	76	5	21	0	72	1.05
4692460--4692495	5	6.8	5	87	12	54	0	19	0	80	0.71
4692467--4692518	12	4.2	12	76	16	52	3	25	0	71	1.03
4692460--4692501	22	2.0	22	90	4	68	0	21	0	78	0.75
4692420--4692503	25	3.2	25	70	26	68	5	22	0	71	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4692435--4692512	25	3.0	26	75	10	72	7	21	0	70	1.12
4693193--4693239	21	2.3	21	88	3	69	65	10	12	10	1.46
4695056--4695134	22	3.7	21	82	14	99	18	18	17	44	1.87
4695056--4695136	21	3.8	21	82	14	94	18	19	17	44	1.87
4698844--4698882	20	2.0	20	89	0	60	48	17	0	33	1.48
4698952--4699014	2	31.5	2	100	0	126	50	0	0	49	1.00
4699340--4699512	83	2.1	84	92	1	285	39	13	12	34	1.82
4701760--4701829	35	2.0	35	94	5	124	44	24	0	31	1.54
4706024--4706390	175	2.1	176	81	6	431	38	5	10	44	1.63
4706025--4706389	58	6.2	56	75	11	270	38	5	10	44	1.64
4706130--4706386	120	2.2	117	81	7	295	38	4	11	45	1.60
4710100--4710221	54	2.3	54	97	0	226	28	16	22	31	1.96
4710205--4710342	74	1.9	74	89	6	217	20	22	29	27	1.98
4721182--4721219	18	2.1	18	85	9	51	63	2	0	34	1.09
4721188--4721290	54	1.9	52	86	7	145	53	2	9	33	1.49
4722450--4722921	188	2.5	186	90	2	736	42	14	16	26	1.86
4725176--4725218	18	2.4	18	84	7	61	37	4	53	4	1.43
4725616--4725654	18	2.2	18	90	0	60	58	0	33	7	1.26
4728118--4728165	19	2.5	19	93	0	78	33	4	10	52	1.55
4730923--4731450	200	2.7	198	88	3	749	38	14	15	30	1.88
4731465--4731584	64	1.9	64	94	0	213	31	10	12	45	1.75
4733959--4734040	29	2.8	29	94	1	137	32	14	9	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4738805--4738888	29	2.8	29	90	3	132	32	14	9	44	1.77
4741443--4741490	23	2.1	23	88	7	71	10	22	12	54	1.68
4750849--4750873	9	2.8	9	100	0	50	56	0	0	44	0.99
4750857--4751133	37	7.4	37	83	5	317	46	2	6	44	1.42
4751150--4751194	20	2.1	21	88	8	65	22	6	0	71	1.09
4752149--4752436	144	2.0	144	100	0	576	37	13	17	31	1.89
4752422--4752625	43	4.7	43	88	2	259	34	23	24	18	1.96
4757631--4757946	157	2.0	159	98	1	618	34	14	23	27	1.94
4762720--4762854	67	2.0	67	100	0	270	40	10	14	34	1.81
4765575--4766129	201	2.8	199	81	4	616	32	18	19	30	1.96
4766512--4766683	37	4.6	37	76	5	132	44	3	6	45	1.47
4766547--4766684	74	1.9	73	89	1	213	47	3	7	41	1.48
4766651--4766712	28	2.3	28	88	5	92	48	1	6	43	1.38
4766550--4766768	37	6.1	36	72	14	159	47	2	6	43	1.43
4766623--4766768	67	2.2	67	85	2	188	47	2	6	43	1.39
4766676--4766769	39	2.4	39	85	3	127	46	2	5	45	1.37
4787713--4787762	26	2.0	25	84	11	66	44	2	0	54	1.11
4790164--4790651	243	2.0	245	99	0	962	30	17	13	38	1.87
4794706--4794986	136	2.1	136	97	0	535	35	14	17	32	1.90
4815502--4815571	17	4.1	17	79	1	68	38	14	8	38	1.77
4817405--4818034	53	11.9	53	88	2	919	26	15	18	39	1.90
4817399--4817995	315	1.9	315	91	0	989	26	15	18	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4823380--4823590	53	4.0	53	90	0	350	27	16	17	39	1.90
4824160--4824217	24	2.4	25	80	13	68	39	0	5	55	1.22
4827763--4827800	15	2.5	15	100	0	76	0	44	0	55	0.99
4827874--4827991	60	2.0	60	98	0	227	11	33	21	33	1.90
4828286--4828345	24	2.5	24	97	0	111	43	5	26	25	1.75
4829392--4829472	39	2.1	39	97	0	153	45	12	6	35	1.67
4830853--4831164	54	5.8	54	81	3	326	35	25	12	27	1.91
4830887--4831164	108	2.6	108	82	2	369	34	24	12	28	1.91
4831812--4831879	16	3.8	16	71	23	55	44	14	25	16	1.85
4831710--4832158	39	11.4	39	82	5	485	42	12	21	22	1.87
4831828--4831897	23	3.4	22	68	25	62	41	12	25	20	1.88
4831710--4832158	79	5.7	78	84	5	476	42	12	21	22	1.87
4831710--4832162	118	3.8	117	84	4	536	42	12	21	22	1.87
4832025--4832092	23	3.3	23	67	26	69	41	14	25	19	1.89
4833062--4833225	76	2.2	75	84	3	204	30	1	12	56	1.44
4833107--4833217	19	5.8	19	69	17	61	29	0	14	55	1.39
4833159--4833279	63	1.9	63	88	3	181	28	1	14	54	1.50
4833935--4833971	15	2.4	15	90	4	56	35	2	0	62	1.10
4836776--4836838	5	13.0	5	78	9	51	20	9	0	69	1.15
4838484--4838588	19	5.5	19	70	17	58	27	0	15	57	1.39
4839235--4839287	21	2.5	22	79	14	65	15	9	0	75	1.04
4839411--4839453	21	2.0	21	81	4	50	48	11	2	37	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4851465--4851853	54	7.3	54	76	6	308	34	23	12	30	1.91
4855942--4855968	14	1.9	14	100	0	54	7	14	0	77	0.97
4866277--4866314	20	1.9	20	94	0	67	18	10	28	42	1.83
4866277--4866321	20	2.2	20	88	0	63	22	13	26	37	1.91
4867968--4868143	94	1.9	95	84	4	241	36	15	23	23	1.94
4868888--4869280	68	5.8	68	86	0	507	30	13	24	32	1.94
4869230--4869553	81	4.0	81	91	2	483	38	12	20	28	1.89
4869232--4869604	81	4.6	81	86	5	389	38	11	20	28	1.88
4869270--4869633	162	2.2	161	81	6	430	40	10	20	28	1.86
4873700--4873923	95	2.4	95	86	3	290	36	16	25	22	1.94

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