genome.fa.s1465.2.7.7.80.10.50.1000.25.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  25  of  55  ( 6520 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)
4851623--4851668	24	1.9	24	86	8	67	47	6	2	43	1.41
4859662--4859687	3	8.7	3	100	0	52	30	0	0	69	0.89
4860044--4860120	20	3.8	20	82	3	100	41	15	18	24	1.89
4870577--4870689	46	2.4	46	80	14	124	72	5	18	3	1.18
4875491--4875534	23	1.9	23	81	9	54	20	2	2	75	1.03
4876684--4876726	9	5.0	9	82	5	54	88	0	11	0	0.52
4876684--4876724	10	4.0	10	87	12	57	87	0	12	0	0.53
4878758--4879030	108	2.5	106	84	5	336	31	8	17	42	1.79
4878758--4879030	57	5.0	57	72	15	213	31	8	17	42	1.79
4885587--4885915	81	4.1	81	89	0	451	35	11	21	31	1.89
4885587--4885961	81	4.6	81	86	1	437	36	11	20	31	1.89
4897171--4897221	25	2.0	25	92	0	84	25	9	47	17	1.78
4898783--4898810	13	2.2	13	100	0	56	28	53	10	7	1.62
4899514--4899562	26	2.0	23	88	11	71	14	16	28	40	1.87
4899585--4899649	11	5.4	12	71	18	55	56	0	3	40	1.15
4899586--4899667	25	3.3	25	68	23	66	53	0	2	43	1.13
4899881--4899962	42	2.0	42	87	0	119	36	20	20	21	1.95
4900107--4900213	42	2.6	41	83	7	126	33	19	22	24	1.97
4900141--4900215	20	3.7	20	71	13	62	37	21	22	18	1.94
4899833--4900559	251	2.9	251	92	2	1178	36	17	16	29	1.92
4900388--4900469	42	2.0	42	95	0	146	39	19	20	20	1.93
4900402--4900466	20	3.2	20	65	8	58	40	20	20	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4901177--4901285	57	1.9	57	92	1	184	29	27	8	34	1.86
4907551--4907614	18	3.6	18	69	12	51	50	12	4	32	1.61
4907608--4907634	2	13.5	2	100	0	54	51	0	0	48	1.00
4908772--4908831	13	4.9	12	71	16	52	56	0	3	40	1.16
4913273--4913317	16	2.8	17	83	6	58	31	6	22	40	1.80
4913435--4914079	83	7.8	83	82	4	725	33	16	21	28	1.95
4913433--4914079	249	2.6	246	84	4	807	33	16	21	28	1.95
4914956--4915007	26	2.0	26	84	3	68	55	21	3	19	1.58
4916971--4916996	12	2.2	12	100	0	52	69	0	0	30	0.89
4917931--4917968	19	2.0	19	85	10	51	55	0	0	44	0.99
4918134--4918215	24	3.4	24	75	14	71	69	1	1	28	1.03
4918126--4918215	8	11.2	8	70	9	58	68	2	1	27	1.08
4923994--4924043	22	2.3	22	100	0	100	38	22	18	22	1.94
4927575--4927618	21	2.0	22	82	4	54	45	0	6	47	1.29
4927908--4927968	20	2.8	22	85	11	74	67	1	1	29	1.10
4929162--4929212	3	16.3	3	84	8	57	60	1	0	37	1.08
4929373--4930386	227	4.5	227	98	0	1897	34	23	19	21	1.97
4929373--4930386	151	6.7	152	97	0	1901	34	23	19	21	1.97
4929373--4930386	76	13.4	76	97	0	1901	34	23	19	21	1.97
4931063--4931117	22	2.5	22	90	0	92	40	12	10	36	1.79
4931483--4931644	54	3.0	54	87	0	225	22	24	16	37	1.94
4941886--4941929	21	2.0	22	82	4	54	45	0	6	47	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4942219--4942266	20	2.3	22	89	7	73	70	0	2	27	0.98
4942174--4942256	13	5.9	14	74	20	59	67	1	1	30	1.06
4942656--4942699	20	2.3	19	96	4	79	0	36	11	52	1.38
4943476--4943559	3	27.3	3	83	4	96	59	1	1	38	1.13
4949181--4949232	19	2.7	19	78	0	59	34	0	5	59	1.21
4951555--4951592	19	2.0	19	89	0	58	50	0	5	44	1.24
4962039--4962068	2	15.0	2	100	0	60	50	0	0	50	1.00
4962179--4962217	19	2.1	19	90	0	60	10	25	25	38	1.87
4962423--4962535	56	2.0	56	100	0	226	23	37	12	27	1.90
4964909--4965061	65	2.4	64	87	5	220	32	16	20	30	1.95
4972272--4972319	19	2.5	20	82	3	62	29	12	6	52	1.63
4973660--4973819	65	2.5	64	86	5	216	30	17	21	30	1.96
4973660--4973861	65	3.1	60	74	17	167	29	17	22	30	1.97
4975030--4975094	25	2.6	24	80	7	67	36	1	3	58	1.23
4981854--4981886	16	2.1	16	100	0	66	24	33	6	36	1.80
4987353--4987416	24	2.7	23	75	7	65	62	15	7	14	1.53
4993170--4993199	15	2.0	15	93	0	51	23	20	23	33	1.97
4994975--4995063	14	6.9	14	72	19	77	57	15	12	14	1.66
4994975--4995075	24	4.1	24	80	5	105	56	15	11	15	1.67
4995398--4995432	12	2.8	12	86	4	52	42	2	0	54	1.15
5000009--5000088	41	2.0	41	97	0	151	30	22	10	37	1.87
5002345--5002390	19	2.6	18	80	12	51	43	2	0	54	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5002541--5002593	15	3.4	16	75	19	58	50	0	9	39	1.35
5002516--5002627	31	3.1	38	72	26	116	50	0	11	37	1.39
5003167--5003224	5	11.6	5	100	0	116	0	0	18	81	0.70
5005781--5005820	21	2.0	20	85	5	53	35	17	5	42	1.71
5007378--5007469	47	2.0	47	97	2	177	46	8	1	43	1.41
5008027--5008095	14	4.9	14	85	5	95	11	11	18	57	1.63
5008026--5008095	28	2.5	28	88	6	106	11	11	18	58	1.62
5008308--5008375	24	2.8	24	95	0	118	11	19	17	51	1.75
5012114--5012144	15	2.1	15	100	0	62	25	35	12	25	1.92
5012255--5012298	20	2.2	20	84	8	54	25	50	9	15	1.74
5013821--5013869	15	3.3	15	76	0	53	22	22	6	48	1.72
5013821--5013894	30	2.4	31	81	4	87	22	18	8	50	1.74
5020393--5020462	22	3.4	21	84	7	83	30	28	25	15	1.96
5021352--5021402	2	25.5	2	100	0	102	49	0	0	50	1.00
5022021--5022179	64	2.5	64	79	10	146	27	20	18	33	1.96
5023120--5024564	181	8.0	181	98	0	2780	39	13	10	36	1.78
5023120--5024564	361	4.0	362	98	1	2780	39	13	10	36	1.78
5027190--5027248	3	20.0	3	86	10	86	33	0	0	66	0.92
5027282--5027313	11	2.9	11	95	0	55	37	40	18	3	1.67
5034213--5034250	11	3.4	11	89	7	58	71	10	13	5	1.30
5035424--5035461	14	2.6	14	91	4	58	50	31	0	18	1.47
5035920--5036158	105	2.3	103	83	10	292	30	19	12	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5036121--5036224	36	3.0	35	80	6	115	32	20	11	35	1.88
5036458--5036557	28	3.6	28	88	7	134	29	9	16	46	1.77
5036620--5036747	65	2.0	65	86	6	179	31	13	11	43	1.80
5036970--5037094	64	2.0	62	87	3	178	30	14	12	43	1.82
5037076--5037155	40	2.0	40	85	4	108	31	17	11	40	1.85
5037554--5037627	34	2.1	36	82	9	91	36	20	12	31	1.89
5037912--5037965	28	1.9	28	85	7	74	22	16	16	44	1.86
5038034--5038387	43	8.5	43	72	12	220	24	30	20	24	1.98
5037977--5038440	127	3.7	128	90	5	716	25	29	20	24	1.99
5038589--5038647	3	20.0	3	86	10	86	33	0	0	66	0.92
5038684--5038715	11	2.9	11	95	0	55	37	40	18	3	1.67
5041662--5042053	40	9.8	40	76	5	274	27	20	14	37	1.92
5041624--5042066	80	5.5	80	76	1	359	27	19	14	38	1.91
5041683--5042053	160	2.3	159	79	1	409	28	20	14	36	1.92
5043265--5043306	15	2.6	17	82	17	63	50	0	0	50	1.00
5043268--5043345	15	5.1	15	70	21	56	48	1	0	50	1.09
5043309--5043350	14	3.0	14	83	10	50	42	2	0	54	1.13
5045208--5045266	31	1.9	31	89	0	91	32	6	6	54	1.53
5045465--5045489	13	1.9	13	100	0	50	24	8	20	48	1.76
5046203--5046261	30	1.9	31	89	3	93	40	3	0	55	1.16
5052073--5052102	14	2.1	14	100	0	60	6	23	13	56	1.60
5062184--5062246	18	3.6	18	75	16	60	73	1	1	23	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5062216--5062278	25	2.8	22	74	11	58	66	1	4	26	1.20
5062406--5062536	68	1.9	69	81	6	158	63	2	3	31	1.22
5062508--5062546	15	2.7	15	84	4	53	69	2	5	23	1.21
5062960--5063025	34	1.9	34	90	0	105	33	12	10	43	1.76
5063624--5063882	98	2.6	98	83	5	304	19	20	25	33	1.97
5063624--5064016	105	3.8	102	78	8	327	21	20	25	33	1.97
5064721--5064759	11	3.4	11	83	13	51	0	10	5	84	0.76
5075411--5075484	20	3.7	20	69	27	50	58	0	2	39	1.13
5075966--5076031	34	1.9	34	93	0	114	31	13	12	42	1.81
5076515--5077006	162	3.0	165	95	3	865	33	11	18	35	1.88

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