genome.fa.s7984.2.7.7.80.10.50.1000.30.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   
          65   

This is table  30  of  65  ( 7696 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)
5964832--5964869	20	1.9	20	88	0	58	10	31	34	23	1.89
5964833--5965004	67	2.6	66	85	5	211	17	27	27	27	1.98
5966468--5966534	21	3.2	21	68	4	55	19	20	35	23	1.95
5966468--5966590	42	2.9	41	80	7	113	22	17	36	22	1.95
5968591--5968770	19	9.8	19	74	14	119	43	22	21	12	1.86
5968686--5968775	19	4.7	19	94	2	144	45	22	18	13	1.84
5968591--5968775	33	5.1	38	80	10	165	43	22	21	12	1.86
5968771--5968815	19	2.4	19	92	0	72	8	15	26	48	1.74
5969365--5969458	20	4.7	20	77	2	80	23	17	24	35	1.95
5969447--5969542	41	2.3	41	98	0	147	18	23	17	39	1.92
5969447--5969539	20	4.6	20	78	4	96	18	24	18	38	1.92
5972497--5972578	24	3.3	24	80	19	89	51	1	3	43	1.27
5973291--5973358	31	2.2	31	89	0	100	52	7	4	35	1.49
5974161--5974193	17	1.9	17	100	0	66	48	12	0	39	1.40
5975161--5975193	13	2.5	13	95	0	57	60	21	3	15	1.48
5975475--5975537	14	5.0	13	72	20	53	53	14	14	17	1.72
5975472--5975537	24	2.7	24	90	4	96	53	13	15	18	1.74
5976867--5976906	13	3.1	13	86	10	55	15	40	20	25	1.90
5978212--5978246	18	1.9	18	88	0	52	54	0	17	28	1.43
5979369--5979435	12	5.7	11	76	11	53	17	13	17	50	1.77
5979345--5979435	47	1.9	48	82	10	116	19	13	17	49	1.79
5979366--5979437	24	3.0	23	86	6	99	19	12	18	50	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5983035--5983073	20	2.0	20	89	0	60	69	7	15	7	1.35
5997351--5997398	22	2.1	23	88	3	71	81	12	6	0	0.87
6001190--6001312	51	2.4	51	100	0	246	31	1	16	50	1.55
6003098--6003133	17	2.2	17	90	5	56	58	0	2	38	1.13
6003726--6003777	26	2.1	24	82	10	61	36	1	9	51	1.46
6010979--6011100	64	1.9	64	88	3	183	34	21	18	25	1.96
6010979--6011141	64	2.5	64	82	7	172	31	20	20	26	1.97
6011713--6011785	18	3.9	18	80	7	92	20	19	31	28	1.97
6013183--6013237	23	2.4	23	87	0	83	25	21	23	29	1.99
6016463--6016492	16	1.9	16	93	6	53	66	0	6	26	1.16
6020495--6020548	28	1.9	28	84	0	72	25	14	31	27	1.95
6029542--6029595	27	2.0	27	100	0	108	33	29	18	18	1.95
6038926--6038965	21	1.9	21	85	10	55	12	27	32	27	1.93
6039911--6039976	24	2.8	24	83	2	89	21	25	24	28	1.99
6042543--6042575	6	5.3	6	96	3	57	15	3	66	15	1.37
6054783--6054830	19	2.5	19	86	0	60	31	33	18	16	1.94
6059063--6059098	4	9.0	4	93	0	63	25	2	25	47	1.65
6059272--6060012	179	4.0	179	79	10	676	31	14	14	39	1.87
6059372--6060047	199	3.5	199	83	10	878	32	14	13	39	1.85
6059273--6060046	378	2.0	377	83	5	981	31	14	13	39	1.86
6072589--6072643	22	2.5	22	93	0	92	25	25	23	25	2.00
6074133--6074182	23	2.2	23	96	0	91	20	22	12	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6075230--6075282	21	2.5	21	81	0	52	30	15	16	37	1.90
6075341--6075997	183	3.6	183	88	2	962	28	15	12	43	1.83
6075967--6076009	21	2.0	21	86	4	59	34	9	6	48	1.62
6078506--6078537	3	10.7	3	100	0	64	65	0	0	34	0.93
6083218--6083253	2	18.0	2	100	0	72	50	0	0	50	1.00
6085397--6085449	23	2.3	23	90	0	79	5	7	30	56	1.50
6086091--6086133	20	2.2	19	84	12	52	32	11	4	51	1.59
6086154--6086228	24	3.1	23	77	12	80	41	6	1	50	1.37
6086162--6086358	24	8.8	23	67	25	86	45	7	0	47	1.34
6086214--6086274	2	31.5	2	85	12	83	49	1	0	49	1.10
6086220--6086288	30	2.2	32	92	7	115	47	5	0	46	1.26
6086258--6086359	43	2.3	44	91	3	161	45	7	0	47	1.32
6087434--6087526	40	2.3	40	83	7	109	31	16	10	41	1.82
6087477--6087526	20	2.5	20	81	12	66	30	14	12	44	1.81
6087716--6087763	21	2.3	21	88	0	69	35	35	12	16	1.87
6087764--6088224	42	10.8	42	82	9	478	21	19	24	34	1.96
6087772--6088149	63	6.0	61	83	8	458	21	19	24	34	1.96
6087764--6088224	105	4.3	106	79	11	514	21	19	24	34	1.96
6088121--6088179	30	2.0	30	100	0	118	22	20	20	37	1.95
6088159--6088224	21	3.3	19	76	15	78	21	21	24	33	1.97
6088085--6088221	72	1.9	73	96	3	258	19	20	24	35	1.96
6088314--6088370	6	9.5	6	83	7	62	28	56	14	1	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6088318--6088371	18	3.0	18	88	0	81	25	57	14	1	1.48
6089020--6089071	6	9.0	6	95	2	72	0	17	61	21	1.34
6090849--6090894	2	23.0	2	95	0	83	0	47	0	52	1.00
6092542--6092604	2	31.5	2	100	0	126	49	0	0	50	1.00
6102376--6102474	50	2.0	50	97	0	189	16	38	9	36	1.80
6102839--6102874	16	2.3	15	90	4	54	41	0	5	52	1.24
6102962--6102995	7	4.7	7	85	7	50	67	0	0	32	0.91
6103003--6103059	15	3.7	15	77	9	69	21	33	28	17	1.96
6103003--6103071	15	4.3	16	75	10	52	21	31	27	18	1.97
6103003--6103071	32	2.2	32	91	0	111	21	31	27	18	1.97
6108734--6108778	2	22.5	2	90	0	72	51	0	2	46	1.13
6108806--6108970	85	1.9	85	92	0	276	30	16	20	32	1.95
6108814--6108990	85	2.1	85	84	0	228	29	18	19	32	1.96
6114177--6114239	18	3.6	17	77	14	58	28	1	3	66	1.16
6121726--6121759	6	5.7	6	89	0	50	76	2	2	17	1.04
6126266--6126323	15	3.8	15	86	2	80	53	1	1	43	1.21
6126266--6126323	30	1.9	31	89	3	91	53	1	1	43	1.21
6126390--6126426	19	1.9	19	94	0	65	64	5	0	29	1.15
6127762--6128295	158	3.4	156	84	5	675	28	16	5	49	1.69
6128556--6128597	2	21.0	2	100	0	84	50	0	0	50	1.00
6135797--6135844	25	2.0	24	92	8	80	54	4	10	31	1.53
6138081--6138114	16	2.3	14	90	10	50	50	14	0	35	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6140184--6140234	2	26.5	2	92	7	88	50	0	0	49	1.00
6140389--6140433	18	2.5	18	88	0	72	35	15	28	20	1.93
6144503--6144543	16	2.6	16	100	0	82	36	19	24	19	1.95
6144503--6144548	9	5.6	9	78	19	55	34	19	26	19	1.96
6163055--6163179	58	2.2	58	81	8	148	41	7	12	38	1.71
6170443--6170478	16	2.2	16	100	0	72	36	19	19	25	1.95
6170459--6170549	45	2.0	47	91	4	150	29	8	21	39	1.84
6180176--6180251	17	4.1	18	79	17	84	75	0	11	13	1.06
6180198--6180276	7	10.7	7	88	10	113	74	0	13	11	1.07
6180293--6180378	45	1.9	45	81	9	104	39	17	26	16	1.90
6181633--6181958	55	5.9	55	89	3	460	26	16	25	31	1.96
6186348--6186379	15	2.1	15	94	0	55	65	9	12	12	1.47
6196678--6196749	30	2.4	30	77	11	76	29	12	27	30	1.93
6196722--6196775	20	2.7	20	80	5	56	27	9	31	31	1.88
6196692--6196816	50	2.5	50	88	2	171	28	8	32	30	1.87
6208411--6208505	3	31.7	3	87	12	142	34	0	1	64	1.01
6210131--6210180	23	2.0	26	85	11	70	46	2	0	52	1.12
6210686--6210732	22	2.1	22	84	7	60	29	2	0	68	1.02
6211034--6211058	9	2.8	9	100	0	50	44	36	8	12	1.71
6213954--6213985	15	2.1	15	94	0	55	25	18	9	46	1.79
6221315--6221353	16	2.5	16	87	4	53	82	0	17	0	0.68
6221310--6221353	18	2.5	18	82	17	65	81	0	18	0	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6221312--6221351	9	4.3	9	83	3	53	85	0	15	0	0.61
6222339--6222629	94	3.1	94	88	6	466	29	15	20	34	1.94
6223418--6223986	116	5.0	114	84	3	682	38	13	18	29	1.89
6223811--6223855	24	1.9	23	82	13	56	48	6	26	17	1.72
6223417--6223986	228	2.5	227	85	2	709	38	13	18	29	1.89
6223895--6224128	123	1.9	123	83	6	303	41	16	17	24	1.89
6223420--6224070	228	2.8	222	80	7	549	39	13	18	28	1.89
6224047--6224084	19	2.0	19	94	0	67	50	15	18	15	1.79
6223911--6224178	124	2.2	120	80	10	276	41	16	18	23	1.89
6223911--6224178	123	2.2	121	80	9	285	41	16	18	23	1.89

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   
          65