genome.fa.s7926.2.7.7.80.10.50.1000.22.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  22  of  42  ( 5024 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)
4631933--4632014	31	2.6	31	81	11	105	47	9	4	37	1.58
4638793--4638837	23	2.0	23	100	0	90	48	20	8	22	1.76
4645879--4645918	2	20.0	2	100	0	80	50	0	0	50	1.00
4647545--4647583	20	2.0	20	85	10	53	15	0	25	58	1.37
4651991--4652041	20	2.5	21	71	9	52	35	1	1	60	1.19
4666828--4666874	18	2.8	17	77	6	51	40	4	0	55	1.19
4667885--4667953	9	5.8	13	71	28	64	57	0	0	42	0.98
4667880--4667959	22	3.5	23	93	6	128	58	0	0	41	0.98
4668252--4668309	7	8.3	7	82	0	62	17	0	31	51	1.45
4668374--4668420	11	4.2	12	80	20	57	40	0	6	53	1.27
4668374--4668413	21	1.9	21	90	10	64	42	0	5	52	1.23
4668448--4668509	22	2.6	25	85	12	85	54	1	1	41	1.19
4668794--4668851	14	4.1	14	73	8	64	20	1	29	48	1.60
4668884--4668956	21	3.5	21	75	14	69	24	1	24	49	1.58
4669008--4669142	2	69.5	2	67	21	65	45	5	1	46	1.36
4669001--4669150	54	2.5	58	75	19	141	47	6	1	45	1.35
4669055--4669196	64	2.2	64	88	0	203	45	5	2	47	1.38
4670173--4670244	7	10.3	7	83	0	81	19	0	31	48	1.49
4670305--4670363	21	2.8	21	78	14	59	27	3	20	49	1.65
4670461--4670513	2	26.0	2	79	11	54	43	1	5	49	1.37
4670461--4670513	15	3.5	15	87	5	72	43	1	5	49	1.37
4670660--4670731	2	37.0	2	78	10	78	48	1	2	47	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4670948--4671023	19	3.9	19	71	10	64	27	27	0	44	1.54
4670982--4671033	17	2.8	19	88	8	72	26	28	0	44	1.55
4671206--4671238	2	17.5	2	87	12	52	45	0	0	54	0.99
4671194--4671238	23	2.0	23	86	8	65	46	2	0	51	1.13
4671864--4671904	15	2.7	15	96	0	73	21	21	19	36	1.95
4671926--4672099	64	2.7	64	93	0	294	31	22	18	27	1.97
4679146--4679203	23	2.5	23	80	8	55	51	17	13	17	1.76
4684337--4684453	30	3.9	30	83	4	139	39	22	19	18	1.93
4691349--4691379	13	2.4	13	94	0	53	51	0	0	48	1.00
4691648--4691689	19	2.2	19	91	8	68	45	14	14	26	1.83
4698390--4698450	21	3.2	21	65	29	64	31	4	21	42	1.74
4698389--4698498	35	3.1	35	92	3	168	30	4	20	44	1.71
4703013--4703073	21	3.2	21	65	29	64	31	4	21	42	1.74
4703005--4703123	35	3.3	37	88	8	174	31	5	19	43	1.72
4705530--4705617	44	2.0	45	80	10	101	54	10	15	19	1.69
4705780--4705827	19	2.5	19	82	0	60	39	10	4	45	1.58
4710057--4710103	24	2.0	24	91	0	76	25	17	19	38	1.92
4710960--4710999	20	2.1	19	90	4	62	37	7	32	22	1.82
4712333--4712363	12	2.6	12	89	0	53	35	0	16	48	1.46
4712558--4712745	64	3.0	64	96	0	333	43	13	2	39	1.58
4712776--4712815	3	13.3	3	100	0	80	32	0	0	67	0.91
4714809--4715325	283	1.8	283	85	1	732	37	19	17	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4718044--4718086	18	2.4	18	92	0	77	55	0	0	44	0.99
4718048--4718082	6	5.8	6	100	0	70	51	0	0	48	1.00
4718035--4718095	12	5.5	11	81	13	54	59	0	0	40	0.98
4718274--4718327	24	2.3	24	78	12	58	42	0	5	51	1.25
4719165--4719225	3	20.7	3	80	9	63	60	0	0	39	0.97
4719153--4719225	21	3.3	20	75	17	65	58	0	0	41	0.98
4719563--4720344	113	6.9	113	89	0	1181	27	19	14	37	1.91
4721501--4721549	16	2.8	17	81	12	64	51	6	6	36	1.52
4729244--4729275	15	2.1	15	94	0	55	46	9	18	25	1.79
4733558--4733588	13	2.4	13	100	0	62	83	0	0	16	0.64
4733414--4733760	193	1.8	192	97	2	662	52	5	7	34	1.54
4734801--4734841	3	13.7	3	90	10	66	65	0	0	34	0.93
4745893--4745978	42	2.1	41	91	2	136	60	1	6	31	1.31
4746034--4746063	3	10.0	3	100	0	60	66	0	0	33	0.92
4747076--4747117	2	21.5	2	90	4	68	50	2	0	47	1.14
4747123--4747164	15	2.7	15	79	17	50	64	0	7	28	1.20
4747189--4747242	24	2.3	24	83	3	65	61	0	7	31	1.24
4748651--4748692	20	2.1	20	90	0	66	38	16	21	23	1.93
4748787--4748942	43	3.4	43	71	13	150	21	16	25	37	1.94
4749050--4749458	105	3.9	105	98	0	782	21	19	25	33	1.96
4760993--4761048	2	28.0	2	100	0	112	50	0	0	50	1.00
4761121--4761185	21	3.1	21	82	4	60	63	0	10	26	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4762868--4762909	2	21.0	2	100	0	84	0	50	0	50	1.00
4765085--4765156	18	4.0	18	83	5	83	26	27	20	25	1.99
4765727--4765879	62	2.4	64	84	4	195	30	18	17	32	1.95
4768265--4768320	20	2.8	20	69	15	53	23	17	14	44	1.85
4768326--4768364	20	2.0	20	84	0	51	33	20	7	38	1.81
4768271--4768404	60	2.2	60	84	2	171	29	18	12	39	1.88
4768296--4768423	60	2.1	60	84	5	161	28	19	11	39	1.87
4768347--4768424	40	1.9	39	82	10	95	28	17	12	41	1.87
4770331--4770457	42	3.1	41	79	14	131	26	34	12	25	1.92
4770540--4770691	21	7.2	21	81	3	153	23	7	30	38	1.83
4770540--4770698	63	2.5	63	83	6	180	23	8	30	37	1.84
4770700--4770809	21	5.2	21	84	4	159	30	35	10	22	1.89
4770909--4770973	21	3.2	21	68	12	64	16	10	44	27	1.81
4770909--4771009	39	2.5	41	88	4	152	18	12	40	27	1.88
4770909--4771032	42	3.0	41	83	5	144	22	12	38	26	1.89
4772767--4772833	27	2.5	27	90	0	98	23	2	31	41	1.70
4772864--4773009	20	7.2	20	78	6	125	35	13	22	28	1.92
4772864--4773009	60	2.4	60	77	4	150	35	13	22	28	1.92
4773020--4773072	19	2.7	20	73	5	54	28	11	30	30	1.91
4773931--4774087	65	2.4	65	79	10	169	26	16	24	32	1.96
4780588--4780627	21	1.9	21	85	10	55	35	10	2	52	1.48
4782519--4782626	45	2.4	46	87	4	148	29	19	20	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4782567--4782692	65	2.0	63	83	10	157	26	18	23	32	1.97
4786287--4786343	28	2.0	28	83	6	71	43	12	10	33	1.76
4787020--4787071	19	2.5	20	81	9	61	5	28	5	59	1.44
4787020--4787071	22	2.4	22	83	6	70	5	28	5	59	1.44
4789258--4789526	147	1.8	147	84	1	369	34	11	26	27	1.90
4799983--4800242	130	2.0	132	83	6	332	47	17	12	22	1.81
4817069--4817112	22	2.0	22	100	0	88	45	13	18	22	1.84
4822686--4822726	17	2.4	17	100	0	82	41	19	12	26	1.87
4827098--4827135	20	2.0	20	94	5	69	13	26	42	18	1.87
4827171--4827216	22	2.1	22	87	0	65	19	23	34	21	1.96
4829235--4829317	20	4.0	20	69	17	60	20	20	30	28	1.98
4834111--4834159	27	1.9	25	84	12	64	53	6	2	38	1.38
4834121--4834515	38	10.1	37	71	17	187	45	6	4	44	1.49
4834263--4834346	27	3.2	24	74	16	62	46	5	3	44	1.45
4834261--4834349	25	3.4	25	75	13	81	46	5	3	44	1.43
4834187--4834441	127	2.0	128	97	0	485	44	6	5	44	1.51
4834375--4834542	37	4.5	36	78	12	153	48	7	2	41	1.46
4835148--4835910	84	9.2	84	81	4	818	24	20	25	30	1.99
4835145--4835910	169	4.6	165	89	2	955	24	20	24	30	1.99
4839313--4839357	19	2.4	19	92	3	74	66	8	13	11	1.44
4842068--4842116	27	1.9	25	84	12	64	53	6	2	38	1.38
4842078--4842472	38	10.1	37	71	17	187	45	6	4	44	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4842220--4842303	27	3.2	24	74	16	62	46	5	3	44	1.45
4842218--4842306	25	3.4	25	75	13	81	46	5	3	44	1.43
4842144--4842398	127	2.0	128	97	0	485	44	6	5	44	1.51
4842332--4842499	37	4.5	36	78	12	153	48	7	2	41	1.46
4851188--4851217	11	2.7	11	94	0	51	16	0	10	73	1.09
4862756--4862797	19	2.2	20	84	16	54	59	2	4	33	1.31
4864289--4864338	24	2.0	25	85	11	68	42	10	4	44	1.56
4866932--4867051	35	3.3	36	89	5	181	43	20	5	31	1.73
4866983--4867043	21	3.2	21	65	29	64	42	21	4	31	1.74
4866934--4867078	35	4.1	36	83	11	142	41	19	6	33	1.76

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