genome.fa.s8016.2.7.7.80.10.50.1000.20.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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   

This is table  20  of  25  ( 2971 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)
4368138--4368168	2	15.5	2	100	0	62	51	0	0	48	1.00
4368234--4368311	23	3.2	24	77	15	72	76	0	7	15	0.99
4368257--4368310	8	6.4	8	80	16	56	79	0	7	12	0.92
4368254--4368324	23	3.0	23	80	14	72	77	0	8	14	0.98
4368354--4368399	15	3.0	15	87	3	65	76	4	15	4	1.11
4369883--4369990	40	2.8	38	88	6	157	29	10	16	43	1.81
4369956--4370190	67	3.4	66	77	12	190	37	12	22	28	1.90
4370057--4370179	36	3.4	36	79	3	147	39	13	23	23	1.89
4370205--4370444	84	2.9	82	80	3	232	22	20	25	31	1.98
4370610--4370852	106	2.3	107	88	3	373	21	19	25	33	1.97
4370791--4370883	43	2.1	44	84	2	116	15	20	25	38	1.91
4370632--4371107	256	1.9	255	89	1	747	21	18	26	33	1.96
4370835--4372278	106	13.8	106	90	4	2263	21	18	26	33	1.96
4370835--4372274	214	6.9	212	91	4	2282	21	18	26	33	1.97
4370835--4372278	320	4.6	312	90	3	2248	21	18	26	33	1.96
4371787--4371942	43	3.4	43	70	14	134	19	19	26	33	1.96
4375491--4375515	6	4.2	6	100	0	50	64	0	0	36	0.94
4376301--4376333	2	16.5	2	100	0	66	51	0	0	48	1.00
4376401--4376490	12	7.0	12	68	25	51	76	0	10	13	1.01
4376399--4376475	23	3.2	24	79	13	70	77	0	7	14	0.97
4376392--4376489	17	6.1	15	71	18	63	77	0	9	13	0.99
4376443--4376489	23	2.0	23	92	8	78	82	0	6	10	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4376422--4376489	8	8.1	8	75	18	59	79	0	8	11	0.94
4376519--4376563	14	3.0	15	83	9	56	75	4	15	4	1.12
4384211--4384679	77	6.2	77	83	5	528	37	9	18	35	1.82
4384332--4384451	37	3.2	37	68	19	102	38	11	17	32	1.86
4384292--4384497	40	5.3	40	66	14	135	36	8	17	37	1.80
4384212--4384679	231	2.1	225	84	5	593	37	9	17	35	1.82
4384746--4385049	165	1.8	166	85	3	434	42	9	11	37	1.73
4384977--4385164	80	2.3	81	83	8	231	35	14	7	42	1.75
4385652--4385726	38	2.0	38	81	5	89	32	14	12	41	1.83
4386936--4386965	16	1.9	16	93	6	53	60	6	0	33	1.23
4389563--4389608	13	3.5	13	84	0	65	30	17	13	39	1.87
4389558--4389618	26	2.3	26	85	0	86	32	21	11	34	1.89
4389615--4389812	85	2.3	85	88	1	290	29	21	17	31	1.96
4391068--4391113	9	5.6	9	75	19	55	71	8	8	10	1.30
4391068--4391113	16	2.9	16	93	0	74	71	8	8	10	1.30
4391887--4391948	33	1.9	32	90	3	97	53	3	1	41	1.27
4398277--4398323	12	3.7	12	81	13	58	38	2	2	57	1.23
4400963--4401011	22	2.2	22	85	0	62	51	0	0	48	1.00
4400955--4401013	30	1.9	32	86	6	86	49	0	0	50	1.00
4400979--4401046	23	2.9	23	76	12	66	50	1	1	47	1.19
4401122--4401190	19	3.6	18	71	21	52	49	1	1	47	1.19
4401085--4401170	27	3.1	27	71	18	70	47	1	2	48	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4401185--4401229	23	2.0	23	86	0	63	53	2	2	42	1.25
4401324--4401379	20	2.7	22	71	23	57	57	0	0	42	0.99
4401334--4401407	22	3.1	23	81	15	71	51	0	1	47	1.09
4404283--4404401	24	5.0	24	86	6	143	39	20	15	24	1.91
4404316--4404419	48	2.2	48	82	6	131	42	18	14	25	1.88
4406816--4406840	13	1.9	13	100	0	50	20	16	48	16	1.82
4408940--4408988	24	2.0	24	88	0	71	24	10	14	51	1.73
4413396--4413476	43	1.9	42	84	2	108	40	12	6	40	1.68
4413506--4413673	59	2.9	57	83	3	194	38	13	9	38	1.77
4414139--4414173	14	2.4	15	90	4	54	57	8	2	31	1.44
4420905--4420948	2	22.0	2	100	0	88	50	0	0	50	1.00
4421343--4421391	24	2.0	24	96	0	89	51	10	4	34	1.55
4422255--4422308	26	2.1	26	86	13	76	55	14	16	12	1.69
4422981--4423021	21	2.0	20	85	4	55	51	7	21	19	1.71
4431376--4431412	16	2.2	17	90	9	67	18	5	27	48	1.70
4432915--4432956	21	2.0	21	95	0	75	26	28	21	23	1.99
4433112--4433171	29	2.0	31	90	6	97	41	16	6	35	1.75
4435993--4436025	16	2.0	17	94	5	59	36	21	6	36	1.78
4448732--4448770	14	3.0	13	82	10	53	58	2	0	38	1.12
4448867--4448904	19	2.1	19	95	5	69	71	5	5	18	1.25
4450170--4450257	3	28.7	3	79	4	86	56	0	2	40	1.11
4450480--4451745	116	11.0	116	96	0	2174	29	20	12	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4450480--4451745	463	2.7	463	94	1	2172	29	20	12	37	1.89
4452145--4452199	22	2.5	22	87	0	83	38	14	10	36	1.81
4452571--4452879	54	5.8	54	81	5	344	25	21	15	38	1.92
4452571--4452879	108	2.9	108	92	2	484	25	21	15	38	1.92
4452566--4452865	162	1.9	158	85	5	415	26	21	14	38	1.91
4454896--4455121	114	2.0	114	91	0	362	30	20	15	33	1.94
4457434--4457524	3	29.7	3	80	4	92	57	0	2	40	1.11
4460688--4460747	13	4.8	13	76	15	72	26	0	1	71	0.95
4460688--4460738	21	2.4	21	83	0	57	27	0	1	70	0.98
4460690--4460751	29	2.1	29	82	11	74	24	0	1	74	0.91
4460692--4460734	16	2.7	16	88	0	59	25	0	2	72	0.97
4460677--4460733	8	7.1	8	72	7	53	26	0	3	70	1.03
4460677--4460747	16	4.3	16	74	12	54	26	0	2	70	1.01
4460708--4460751	21	2.1	21	91	0	70	22	0	0	77	0.77
4460917--4460954	13	2.9	13	84	0	58	81	0	0	18	0.69
4460917--4460960	8	5.2	8	84	10	61	81	0	0	18	0.68
4460917--4460971	29	2.0	27	89	7	83	80	0	0	20	0.72
4461470--4461538	31	2.2	31	89	0	111	23	23	13	40	1.89
4470382--4470415	12	3.0	11	87	8	50	47	0	2	50	1.16
4470364--4470445	41	2.0	41	83	9	105	48	1	2	47	1.22
4470681--4470736	29	1.9	29	85	0	76	48	5	10	35	1.61
4470715--4470754	16	2.4	16	87	4	53	60	0	7	32	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4476609--4476685	31	2.5	31	91	0	136	15	27	37	19	1.92
4476902--4476984	6	14.0	6	73	2	69	62	3	1	32	1.20
4476924--4476975	21	2.5	21	96	0	95	59	5	0	34	1.21
4476915--4476984	30	2.3	30	87	0	95	61	4	1	32	1.24
4476902--4476984	9	9.3	9	81	2	69	62	3	1	32	1.20
4476936--4476981	21	2.2	21	88	0	65	63	6	0	30	1.20
4477335--4478312	113	8.6	113	93	0	1609	28	20	14	36	1.92
4478747--4478801	22	2.5	22	87	0	83	36	14	14	34	1.87
4480965--4481024	30	2.0	30	90	0	93	25	21	20	33	1.97
4494498--4494591	31	3.0	31	100	0	188	38	23	19	19	1.93
4497839--4497878	15	2.7	15	88	3	55	50	12	15	22	1.77
4501688--4501777	3	30.0	3	75	4	74	58	2	1	37	1.17
4501726--4501777	21	2.5	21	93	0	86	59	3	0	36	1.16
4501681--4501776	30	2.9	32	83	12	106	57	2	2	38	1.22
4503402--4503461	15	4.0	15	80	0	66	28	6	21	43	1.78
4503582--4503652	23	3.1	23	75	0	79	25	19	22	32	1.98
4503841--4503882	17	2.6	16	81	7	57	19	11	14	54	1.70
4512417--4512646	117	2.0	114	97	2	433	40	16	10	32	1.82
4512648--4512700	22	2.4	21	84	6	61	22	32	18	26	1.97
4518596--4518629	17	2.0	17	88	0	50	14	2	29	52	1.56
4519237--4519300	22	2.8	23	88	4	94	23	39	21	15	1.92
4520087--4520128	21	2.0	21	85	0	57	30	0	21	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4533575--4533740	63	2.6	63	88	0	260	15	35	13	36	1.86
4534748--4535099	43	8.2	43	72	11	179	49	7	16	26	1.72
4534758--4534915	87	1.8	85	81	5	192	45	6	20	27	1.75
4534748--4535055	43	7.2	42	72	6	181	48	6	17	27	1.72
4534893--4535055	87	1.9	85	82	8	206	47	7	18	26	1.74
4536439--4536517	35	2.3	35	100	0	158	59	18	2	18	1.49
4537278--4537319	21	2.0	22	85	4	59	52	0	2	45	1.13
4537274--4537322	22	2.3	23	79	13	59	48	0	2	48	1.12
4537467--4537543	20	3.9	19	70	24	52	54	2	5	37	1.37
4537534--4537618	23	3.9	22	75	19	63	42	2	2	52	1.27

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