genome.fa.s9582.2.7.7.80.10.50.1000.23.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: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4978262

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   

This is table  23  of  24  ( 2799 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)
4634433--4634522	29	3.1	27	76	14	83	37	11	16	34	1.84
4634500--4634584	34	2.4	35	86	3	118	36	14	23	25	1.93
4634599--4634749	39	3.9	39	88	4	225	37	13	16	31	1.88
4634732--4634974	76	3.2	76	81	6	210	39	13	15	31	1.85
4634772--4634974	76	2.7	77	82	6	261	39	12	16	31	1.85
4639732--4639775	18	2.3	18	84	11	52	47	2	6	43	1.42
4640889--4640927	20	2.0	20	84	0	51	28	38	0	33	1.57
4648618--4648665	24	2.0	24	91	0	78	35	0	10	54	1.35
4648768--4648815	20	2.5	20	83	10	55	31	16	2	50	1.57
4654461--4654498	11	3.4	11	88	3	58	52	0	28	18	1.45
4656564--4656715	49	3.2	49	65	12	136	32	9	19	38	1.84
4656539--4656734	93	2.1	92	92	0	320	34	9	19	36	1.84
4658686--4658744	22	2.7	22	94	0	109	22	27	27	23	1.99
4667283--4667351	3	23.0	3	84	0	93	59	0	0	40	0.97
4667580--4668249	114	5.9	114	94	1	1112	28	19	13	38	1.89
4667580--4668249	227	2.9	228	93	1	1103	28	19	13	38	1.89
4667580--4668249	341	2.0	342	93	1	1146	28	19	13	38	1.89
4668870--4669366	83	6.0	83	92	2	795	37	22	13	27	1.91
4668864--4669384	250	2.1	249	89	3	816	37	22	12	27	1.91
4670517--4670582	7	8.5	8	77	15	68	1	15	0	83	0.72
4670518--4670582	19	3.6	18	85	6	87	1	13	0	84	0.69
4670518--4670582	11	6.0	11	71	10	62	1	13	0	84	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4681229--4681279	18	2.9	17	75	16	50	72	1	0	25	0.95
4683391--4683465	3	25.0	3	86	0	105	60	0	0	40	0.97
4690296--4690345	17	2.8	18	93	6	93	30	0	14	56	1.39
4690469--4690518	18	2.7	19	85	11	68	70	6	4	20	1.25
4692585--4692908	162	2.0	161	99	0	639	36	11	16	36	1.84
4693158--4693415	40	6.4	40	77	11	181	37	24	18	19	1.93
4693158--4693390	122	1.9	121	80	6	274	39	24	18	18	1.92
4693158--4693413	20	12.6	20	71	13	159	38	24	18	18	1.93
4693570--4693631	32	1.9	32	83	6	81	25	4	11	58	1.53
4693806--4693909	55	1.9	55	91	0	172	48	18	22	11	1.80
4693919--4694047	33	3.9	33	94	1	231	11	23	19	45	1.83
4693971--4694027	14	3.7	14	72	20	51	10	24	21	43	1.83
4693985--4694095	20	5.9	20	76	14	112	11	24	18	45	1.83
4695770--4696052	93	3.1	93	92	3	480	21	12	18	47	1.81
4696099--4696232	19	7.4	19	67	19	90	44	22	20	12	1.85
4696157--4696213	14	3.7	14	77	20	60	45	21	22	10	1.82
4696140--4696245	33	3.2	33	93	0	176	46	22	20	10	1.81
4697734--4697823	20	4.5	20	91	0	144	36	23	22	17	1.95
4697734--4697823	40	2.2	40	96	0	162	36	23	22	17	1.95
4697816--4697885	33	2.1	33	86	0	95	51	21	15	11	1.75
4697900--4697995	18	5.7	18	74	21	100	11	19	20	47	1.80
4697905--4697981	14	4.9	14	74	22	64	11	18	20	49	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4697900--4698011	33	3.4	33	91	1	172	10	20	21	47	1.80
4698138--4698177	14	2.8	14	96	3	71	52	17	0	30	1.45
4699593--4699673	40	2.0	40	87	4	117	19	16	43	20	1.88
4700045--4700094	20	2.5	20	83	0	64	40	24	22	14	1.90
4700092--4700135	21	2.1	21	100	0	88	59	18	13	9	1.60
4700160--4700284	33	3.8	33	92	0	205	12	16	19	51	1.76
4700155--4700284	19	7.6	19	70	23	110	13	17	19	50	1.78
4700172--4700269	14	6.3	14	73	21	79	11	16	19	53	1.73
4700270--4700312	20	2.2	20	87	4	61	18	23	20	37	1.94
4700278--4700323	20	2.3	20	88	0	65	15	21	26	36	1.93
4700805--4700849	18	2.5	18	88	0	72	13	15	44	26	1.83
4702169--4702211	20	2.2	20	86	0	59	48	20	18	11	1.79
4702179--4702247	20	3.5	20	89	0	102	34	24	18	21	1.96
4702510--4702553	22	2.0	22	95	0	79	18	15	45	20	1.85
4702740--4702809	20	3.5	20	94	0	122	24	20	25	30	1.99
4702726--4702854	40	3.2	41	78	8	147	23	17	24	35	1.95
4702740--4702853	20	5.7	20	81	8	97	23	18	24	33	1.97
4702924--4702964	21	2.0	21	85	0	55	34	29	17	19	1.94
4707500--4707545	23	2.0	23	91	4	76	32	13	17	36	1.88
4723906--4723943	20	2.0	20	89	5	60	36	36	15	10	1.82
4729883--4730085	101	2.0	101	87	0	289	27	17	26	29	1.98
4756453--4756516	24	2.7	24	85	4	76	29	43	15	10	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4761755--4761804	24	2.1	24	85	7	66	24	2	14	60	1.45
4763962--4764002	21	2.0	21	90	0	64	31	24	14	29	1.95
4768531--4768573	20	2.1	21	87	8	63	13	16	0	69	1.19
4771874--4771923	24	2.1	24	85	7	66	24	2	14	60	1.45
4773488--4773525	19	2.0	19	94	0	67	21	7	15	55	1.66
4777475--4777507	17	1.9	17	93	0	57	45	12	6	36	1.66
4779494--4779564	35	2.0	37	94	5	128	18	29	32	19	1.96
4780592--4780679	23	3.8	23	75	14	99	18	25	26	30	1.98
4781326--4781378	13	4.0	14	79	18	60	22	15	24	37	1.92
4781315--4781372	26	2.3	26	93	3	100	22	12	27	37	1.89
4782352--4782394	22	2.0	22	90	0	68	27	25	27	18	1.98
4782422--4782470	22	2.3	22	85	3	64	32	30	24	12	1.92
4786179--4786250	35	2.0	37	94	5	130	16	31	31	19	1.94
4787285--4787372	23	3.8	23	73	16	83	19	21	26	32	1.97
4790321--4790365	3	15.0	3	80	0	54	33	6	2	57	1.37
4790323--4790365	15	2.9	15	89	6	61	34	6	2	55	1.39
4790321--4790365	18	2.5	18	92	0	72	33	6	2	57	1.37
4790858--4791171	158	2.0	159	99	0	621	50	14	22	12	1.77
4792435--4792519	44	1.9	44	80	4	100	27	9	14	49	1.73
4792447--4792536	44	2.0	44	86	0	126	23	8	13	54	1.67
4793012--4793103	45	2.0	46	85	8	125	36	15	19	28	1.92
4794558--4794625	24	2.8	24	90	0	100	38	19	17	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4795398--4795484	24	3.7	24	81	1	59	40	20	13	25	1.89
4797807--4797841	15	2.4	15	90	4	54	14	25	45	14	1.82
4802059--4802326	80	3.3	80	85	3	351	35	19	18	26	1.95
4802059--4802365	80	3.8	78	76	10	237	34	19	19	26	1.96
4802069--4802386	160	2.0	159	81	7	367	35	20	18	25	1.95
4821899--4821945	14	3.1	15	77	17	60	6	12	25	55	1.61
4821896--4821952	13	4.0	13	79	16	60	7	14	28	50	1.68
4822024--4822345	165	2.0	156	93	6	547	33	22	15	28	1.95
4822655--4822701	18	2.7	18	96	3	87	27	0	10	61	1.29
4822837--4822895	28	2.1	29	84	9	77	57	3	3	35	1.32
4824518--4824556	15	2.7	15	88	4	53	58	10	5	25	1.51
4826394--4826634	20	12.1	20	81	6	274	33	22	20	23	1.97
4834057--4834095	15	2.7	15	88	4	53	58	10	5	25	1.51
4835306--4835379	21	3.5	21	84	0	85	37	6	24	31	1.81
4848125--4848205	24	3.5	25	69	19	77	24	27	22	25	2.00
4849749--4849792	21	2.1	21	82	0	52	9	43	15	31	1.79
4854807--4855177	183	2.0	185	98	1	728	19	18	11	50	1.77
4856775--4856938	81	2.0	82	98	1	321	43	18	10	27	1.83
4857774--4857895	49	2.4	51	83	6	142	36	2	9	52	1.46
4861428--4861694	97	2.9	90	83	5	327	22	22	27	28	1.99
4863866--4863972	47	2.3	47	88	3	146	42	24	13	20	1.87
4863975--4864104	31	4.0	32	78	10	138	33	34	14	16	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4866966--4867050	35	2.5	34	94	3	145	37	0	1	61	1.04
4867358--4867454	51	1.9	51	84	0	131	32	14	17	35	1.90
4869706--4869772	3	23.0	3	79	11	77	65	0	4	29	1.12
4869706--4869773	19	3.5	19	84	13	86	66	0	4	29	1.11
4870020--4870404	121	3.2	120	90	4	580	25	19	15	40	1.90
4870205--4870259	17	3.1	17	68	27	51	21	23	7	47	1.76
4870780--4870858	22	3.6	22	89	3	124	35	13	17	32	1.90
4875178--4875234	8	7.8	8	84	15	79	0	21	0	78	0.74
4875179--4875233	7	7.7	7	88	8	76	0	21	0	78	0.76
4876175--4876571	207	1.9	207	94	1	697	28	21	16	34	1.95

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