genome.fa.s9592.2.7.7.80.10.50.1000.24.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   

This is table  24  of  39  ( 4673 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)
4657070--4657190	61	2.0	61	80	6	138	26	20	18	34	1.95
4657228--4657279	20	2.5	21	87	3	70	21	23	17	38	1.93
4658579--4658605	2	13.5	2	100	0	54	51	0	0	48	1.00
4666004--4666030	8	3.4	8	100	0	54	77	0	0	22	0.76
4669407--4669444	2	19.0	2	88	0	58	44	0	0	55	0.99
4669858--4669933	29	2.6	29	89	0	125	35	23	7	32	1.84
4670346--4670422	27	2.8	27	94	4	127	33	6	9	50	1.60
4670788--4670900	42	2.7	42	87	0	163	20	12	13	53	1.71
4671181--4671261	20	4.1	19	67	19	58	46	0	1	51	1.08
4671118--4671261	30	4.8	30	73	19	113	47	0	1	50	1.14
4671198--4671292	40	2.4	40	85	11	126	48	0	1	50	1.07
4671213--4671279	20	3.3	20	69	21	59	49	0	1	49	1.10
4671429--4671478	20	2.5	20	96	0	91	32	16	12	40	1.84
4671461--4671556	15	6.5	15	80	4	115	35	19	6	38	1.77
4671461--4671560	29	3.4	29	97	1	182	34	19	6	41	1.76
4672809--4672854	24	1.9	24	86	0	65	21	32	10	34	1.88
4678527--4678601	21	3.4	21	74	13	62	29	22	21	26	1.99
4678527--4678624	45	2.2	44	87	8	137	27	23	22	26	1.99
4684462--4684695	43	5.4	43	85	3	256	27	17	26	28	1.98
4684462--4684738	129	2.1	129	78	5	292	27	17	25	29	1.98
4685138--4685194	21	2.7	21	97	0	105	0	35	22	42	1.54
4685138--4685220	42	2.0	42	82	0	103	1	36	20	42	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4685202--4685257	21	2.7	21	82	0	85	1	42	17	37	1.60
4692435--4692525	46	2.0	46	95	0	164	50	15	23	10	1.75
4693351--4693569	41	5.3	42	73	10	118	30	21	19	28	1.98
4693809--4693996	57	3.3	57	99	0	367	51	13	5	29	1.64
4695006--4695110	41	2.5	41	80	13	117	28	21	17	32	1.96
4702347--4702379	16	2.1	16	100	0	66	39	12	24	24	1.89
4708700--4708774	35	2.1	35	90	0	114	44	24	0	32	1.54
4708769--4708846	35	2.2	34	86	6	111	41	0	16	42	1.48
4713348--4713380	14	2.4	14	94	0	57	24	18	6	51	1.68
4717395--4717440	21	2.2	20	92	3	74	19	8	13	58	1.60
4718086--4718461	85	4.4	85	91	1	520	31	24	26	17	1.97
4718086--4718461	43	8.8	43	93	1	551	31	24	26	17	1.97
4719911--4719945	18	1.9	18	88	0	52	28	14	0	57	1.38
4721277--4721330	23	2.4	22	87	6	72	11	20	50	18	1.77
4723249--4723327	10	7.4	10	69	18	52	37	21	5	35	1.76
4723840--4724303	236	2.0	236	99	0	919	38	18	9	33	1.84
4725377--4725410	15	2.3	15	89	0	50	32	32	0	35	1.58
4725392--4725457	30	2.2	30	86	0	96	31	31	1	34	1.67
4725771--4725804	13	2.6	13	85	0	50	29	2	11	55	1.50
4726440--4726473	12	2.8	12	90	4	50	47	17	0	35	1.48
4726436--4726469	17	2.0	17	94	0	59	47	14	0	38	1.45
4726545--4726578	13	2.6	13	86	13	52	44	8	2	44	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4727756--4727913	21	7.8	20	70	7	77	37	25	17	18	1.93
4727881--4728109	20	11.4	20	86	1	244	37	26	17	18	1.93
4728802--4728848	24	2.0	24	87	8	69	25	14	21	38	1.92
4729023--4729047	12	2.1	12	100	0	50	72	0	28	0	0.86
4731281--4731432	33	4.4	34	72	21	111	46	17	21	14	1.84
4731305--4731432	19	7.2	19	76	19	150	46	17	21	14	1.83
4731305--4731432	53	2.4	53	94	2	222	46	17	21	14	1.83
4731451--4731547	19	5.4	19	82	14	125	13	23	17	45	1.84
4731434--4731547	51	2.2	53	93	3	196	13	23	18	44	1.85
4731653--4731689	14	2.6	14	91	0	65	45	21	0	32	1.52
4731756--4731790	12	2.9	12	82	0	52	65	14	0	20	1.26
4732968--4733034	21	3.2	21	70	8	64	20	17	34	26	1.96
4732968--4733047	42	1.9	42	84	5	108	23	16	35	25	1.95
4733483--4733655	19	9.6	19	78	12	159	45	23	20	10	1.81
4733577--4733633	14	3.7	14	75	20	51	43	22	22	10	1.84
4733558--4733650	33	2.8	33	95	0	168	46	21	21	10	1.81
4733517--4733655	52	2.7	52	74	8	147	46	23	21	9	1.80
4733667--4733725	14	3.9	14	76	20	64	6	16	28	47	1.72
4733651--4733745	33	2.9	33	93	0	163	7	16	28	47	1.74
4733651--4733779	19	7.3	19	76	17	134	8	16	28	46	1.76
4735695--4735758	20	3.2	20	86	4	101	48	15	23	12	1.79
4735693--4735757	21	3.1	21	86	4	105	49	15	24	10	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4735905--4735960	14	3.7	14	73	17	58	44	21	25	8	1.81
4735904--4735972	32	2.2	32	97	0	129	46	20	23	10	1.80
4736339--4736552	20	10.6	20	88	4	315	18	19	28	33	1.95
4736600--4736657	21	2.8	21	97	0	107	22	18	22	36	1.95
4736683--4736735	19	2.8	19	100	0	106	9	16	22	50	1.74
4739434--4739473	20	2.0	20	100	0	80	40	15	15	30	1.87
4741035--4741104	36	1.9	36	85	5	97	24	25	35	14	1.93
4742204--4742316	60	1.9	59	81	1	136	27	24	23	23	2.00
4743050--4743173	64	1.9	65	88	4	189	29	22	20	27	1.98
4746000--4746050	3	17.0	3	83	0	66	35	29	0	35	1.58
4747148--4747189	16	2.4	19	80	15	54	52	4	0	42	1.22
4748096--4748156	24	2.5	24	79	15	63	62	1	0	36	1.05
4748079--4748159	34	2.4	33	83	6	92	64	1	1	33	1.10
4761680--4761705	6	4.3	6	100	0	52	0	15	50	34	1.45
4767052--4767082	6	5.2	6	92	0	53	0	19	45	35	1.51
4769760--4769806	21	2.2	21	92	0	76	65	0	6	27	1.16
4769770--4769825	21	2.8	20	86	13	71	69	0	3	26	1.04
4774417--4774589	37	4.8	37	82	5	210	30	27	10	31	1.91
4774413--4774579	71	2.3	71	82	5	201	30	26	10	31	1.90
4774757--4774803	23	2.2	22	85	11	62	53	6	4	36	1.46
4775479--4775504	13	2.0	13	100	0	52	30	7	0	61	1.24
4776926--4776954	13	2.2	13	100	0	58	44	6	13	34	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4781829--4782256	182	2.4	182	89	0	622	42	13	16	28	1.86
4782087--4782414	162	2.0	162	92	0	539	42	12	16	28	1.84
4784965--4785031	33	2.0	33	97	0	125	29	0	46	23	1.53
4787157--4788130	200	4.8	206	83	5	1033	37	13	16	32	1.88
4787335--4788137	403	2.0	400	87	2	1162	37	13	16	32	1.88
4789717--4789750	6	5.7	6	89	0	50	44	2	32	20	1.67
4791082--4791129	24	2.0	24	87	0	69	35	8	8	47	1.64
4791593--4791872	149	1.9	149	87	2	411	41	11	13	34	1.80
4791362--4792074	347	2.1	347	86	3	972	39	12	15	32	1.84
4791710--4792070	198	1.8	198	86	2	528	39	11	15	32	1.84
4795165--4795229	17	3.9	17	76	13	64	53	23	1	21	1.54
4795495--4795533	18	2.2	18	85	0	51	7	25	30	35	1.84
4797110--4797171	21	3.0	20	81	9	79	17	25	30	25	1.97
4797110--4797170	22	2.9	21	82	7	79	18	26	31	24	1.97
4801935--4802000	16	4.1	17	74	14	59	51	24	1	22	1.57
4803882--4803964	22	3.8	22	85	4	105	20	24	31	24	1.98
4807750--4807789	21	1.9	21	85	10	55	35	10	2	52	1.48
4811072--4811504	196	2.2	196	86	4	579	37	13	16	32	1.88
4811573--4811822	87	2.9	87	95	0	437	33	13	10	42	1.78
4811657--4811701	23	2.0	23	90	0	72	40	17	8	33	1.81
4812485--4812557	2	37.0	2	97	2	139	50	0	0	49	1.00
4828700--4828760	20	2.9	21	87	7	79	18	26	34	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4838597--4838643	20	2.2	20	85	7	58	72	0	6	21	1.07
4838990--4839119	60	2.2	61	84	2	165	30	21	8	40	1.83
4839778--4839823	24	2.0	23	86	4	65	41	2	6	50	1.40
4842597--4842642	20	2.3	20	100	0	92	23	15	19	41	1.89
4843288--4843331	22	2.0	22	91	8	72	36	9	29	25	1.86
4844785--4844933	60	2.5	60	83	2	183	44	4	19	32	1.69
4847059--4847092	8	4.2	8	85	14	52	52	0	8	38	1.33
4847057--4847100	16	2.6	17	89	10	72	54	0	6	38	1.27
4847475--4847526	19	2.9	17	75	13	50	46	0	0	53	1.00
4847747--4847780	17	2.0	17	100	0	68	47	0	5	47	1.26

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