genome.fa.s8061.2.7.7.80.10.50.1000.26.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

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   

This is table  26  of  26  ( 3118 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)
5497182--5497230	15	3.3	15	94	5	82	24	26	34	14	1.94
5497182--5497227	22	2.1	22	100	0	92	26	26	34	13	1.92
5502238--5502312	38	2.0	37	82	5	89	49	5	0	45	1.25
5503013--5503046	14	2.3	15	90	5	52	52	0	0	47	1.00
5503232--5503268	13	2.7	15	88	12	53	54	0	0	45	1.00
5503236--5503276	11	3.2	13	86	13	50	53	0	0	46	1.00
5503241--5503298	24	2.4	24	85	8	73	53	3	0	43	1.17
5506411--5506463	23	2.3	23	80	9	63	11	32	26	30	1.91
5510280--5510316	10	3.7	10	92	0	65	37	29	21	10	1.88
5510325--5510397	33	2.3	32	88	4	103	26	26	38	9	1.87
5510450--5510504	20	2.8	20	85	0	74	16	27	30	25	1.96
5514312--5514363	15	3.5	15	81	5	61	36	7	19	36	1.80
5514346--5514415	20	3.5	20	88	0	95	44	7	11	37	1.68
5514733--5514897	29	5.9	28	70	20	105	52	1	0	46	1.13
5514733--5514900	28	6.0	28	69	22	97	51	1	0	46	1.13
5514789--5514909	54	2.3	51	76	19	124	51	0	0	47	1.12
5515057--5515212	41	3.8	41	92	1	258	49	18	14	17	1.80
5515057--5515211	83	1.9	83	93	0	265	49	18	13	18	1.79
5515534--5515597	31	2.1	31	100	0	128	31	21	12	34	1.91
5518589--5518641	21	2.5	20	82	11	70	41	9	11	37	1.73
5518736--5518833	48	2.0	50	80	11	114	47	2	0	50	1.12
5518922--5518984	23	2.7	23	80	5	63	46	1	1	50	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5518968--5519054	27	3.3	26	77	16	81	51	2	1	44	1.21
5518968--5519041	27	2.7	27	78	17	82	54	1	1	43	1.17
5519053--5519129	29	2.6	29	80	15	86	51	0	1	46	1.09
5519006--5519129	26	4.7	26	72	19	80	54	0	0	44	1.11
5519083--5519129	14	3.3	14	77	11	51	59	0	0	40	0.97
5520054--5520112	26	2.2	26	82	8	66	49	1	1	47	1.21
5520110--5520914	333	2.4	336	90	3	1240	43	5	4	45	1.48
5520868--5520913	23	2.0	24	83	12	60	47	2	0	50	1.13
5532352--5532430	39	2.1	38	92	2	131	48	2	7	41	1.45
5532454--5532702	83	3.0	84	80	5	281	37	19	15	27	1.92
5539871--5539946	32	2.4	31	84	6	100	21	9	13	56	1.64
5549640--5549700	30	2.0	30	87	0	86	42	4	8	44	1.55
5568275--5568354	34	2.4	34	78	0	88	45	6	7	41	1.58
5569168--5569299	55	2.4	55	94	0	228	28	15	16	40	1.89
5572101--5572190	46	2.0	46	97	0	171	38	32	11	17	1.85
5580916--5580978	27	2.3	27	89	5	92	30	33	17	19	1.95
5592029--5592060	16	2.0	16	100	0	64	37	6	18	37	1.76
5598905--5598967	23	2.7	23	97	0	117	33	17	22	26	1.96
5601950--5602040	23	4.0	23	85	2	112	13	18	19	48	1.81
5607786--5607946	61	2.7	60	79	4	146	31	23	6	38	1.80
5609410--5609471	16	4.1	16	77	12	67	40	0	1	58	1.08
5609412--5609471	29	2.1	27	87	6	84	41	0	1	56	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5611510--5611857	78	4.5	78	94	1	583	49	13	25	11	1.75
5613409--5613443	18	1.9	18	88	0	52	48	0	2	48	1.16
5620121--5620213	29	3.2	29	75	3	105	38	6	3	51	1.44
5626392--5626449	28	2.1	28	83	6	73	44	3	8	43	1.51
5626443--5626513	31	2.4	29	83	4	97	45	9	9	35	1.71
5627537--5627592	28	2.0	28	82	6	69	62	3	8	25	1.41
5628068--5628097	15	2.0	15	100	0	60	33	20	13	33	1.91
5633778--5633814	19	1.9	19	94	0	65	59	5	10	24	1.52
5639785--5639825	22	1.9	21	85	14	57	58	12	9	19	1.61
5642024--5642068	14	3.3	14	87	3	65	57	2	2	37	1.23
5642382--5642417	2	19.0	2	88	11	58	50	0	0	50	1.00
5643633--5643676	14	2.9	14	83	10	52	38	2	0	59	1.10
5647690--5647720	2	15.5	2	100	0	62	48	0	0	51	1.00
5648554--5648610	15	3.7	15	81	9	78	21	35	28	15	1.94
5648554--5648622	15	4.3	16	78	10	61	21	33	27	17	1.96
5648554--5648622	32	2.2	32	94	0	120	21	33	27	17	1.96
5650417--5650465	21	2.3	22	96	3	91	16	22	22	38	1.92
5651405--5651453	22	2.2	23	85	3	64	51	10	12	26	1.71
5662125--5662149	2	12.5	2	100	0	50	52	0	0	48	1.00
5662370--5662493	21	6.0	21	65	10	67	20	16	25	36	1.94
5662374--5662470	41	2.4	41	94	0	167	21	17	24	36	1.95
5662401--5662470	20	3.5	20	72	3	68	17	18	25	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5662816--5662867	21	2.5	21	93	0	95	28	28	17	25	1.97
5662791--5662875	21	4.1	21	76	3	73	35	25	18	20	1.95
5663251--5663284	18	1.9	18	94	5	61	44	0	0	55	0.99
5665639--5665700	27	2.3	27	100	0	124	43	22	8	25	1.80
5665639--5665712	27	2.8	26	92	6	107	44	22	6	25	1.77
5681741--5682499	190	4.0	190	99	0	1493	28	22	21	27	1.99
5686410--5686462	23	2.3	23	87	6	72	45	3	0	50	1.19
5686425--5686488	27	2.5	26	85	9	80	43	3	0	53	1.16
5686493--5686538	17	2.7	17	80	12	58	39	0	6	54	1.26
5686583--5686631	25	2.0	25	88	8	73	59	2	2	36	1.21
5686586--5686656	26	2.8	25	78	18	74	53	2	2	40	1.30
5686643--5686684	2	21.0	2	100	0	84	50	0	0	50	1.00
5687318--5687370	24	2.2	24	100	0	106	26	18	16	37	1.93
5697734--5697829	47	2.0	48	97	2	185	25	20	8	45	1.79
5697904--5697928	12	2.1	12	100	0	50	8	40	8	44	1.63
5724226--5724254	4	7.2	4	100	0	58	24	0	75	0	0.80
5732451--5732511	16	3.8	16	86	0	95	55	22	13	8	1.64
5733063--5733105	19	2.3	19	100	0	86	27	34	9	27	1.88
5733602--5733642	14	2.9	14	85	0	55	56	19	12	12	1.67
5735697--5735729	16	2.1	16	88	11	50	42	0	42	15	1.46
5737324--5737393	35	2.0	34	88	2	104	50	12	7	30	1.67
5748411--5748450	2	20.0	2	100	0	80	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5748456--5748497	12	3.5	12	83	0	57	61	2	9	26	1.39
5748452--5748486	16	2.2	16	94	0	61	60	2	11	25	1.45
5748448--5748497	20	2.5	20	90	0	73	60	2	12	26	1.43
5748448--5748520	24	2.9	24	83	6	74	60	2	12	24	1.45
5754224--5754265	2	21.0	2	100	0	84	50	0	0	50	1.00
5755478--5755502	13	1.9	13	100	0	50	24	28	0	48	1.52
5755546--5755587	17	2.6	16	84	3	57	35	0	0	64	0.94
5764976--5765020	21	2.3	21	85	11	60	0	24	13	62	1.31
5768437--5768472	18	1.9	20	88	11	58	66	0	11	22	1.22
5773675--5773729	5	10.8	5	78	21	53	0	20	1	78	0.85
5773682--5773729	8	5.9	8	88	11	71	0	20	2	77	0.88
5777838--5777862	13	1.9	13	100	0	50	60	0	0	40	0.97
5780860--5780900	8	5.2	8	82	5	57	34	0	29	36	1.58
5780971--5781598	128	4.9	128	95	0	1123	23	24	19	32	1.97
5780971--5781598	255	2.5	255	95	0	1121	23	24	19	32	1.97
5782031--5782089	28	2.2	27	88	8	86	38	1	5	54	1.33
5782608--5782701	21	4.5	21	92	5	129	20	26	35	18	1.95
5784478--5784546	31	2.2	33	79	10	81	59	1	0	39	1.06
5784477--5784551	34	2.3	32	84	9	98	58	1	0	40	1.06
5785564--5785650	14	5.6	16	72	21	53	52	0	0	47	1.00
5785568--5785611	17	2.6	17	88	0	70	59	0	0	40	0.98
5785483--5785650	64	2.6	65	76	12	166	47	1	2	48	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5785779--5785813	18	1.9	18	94	0	61	57	8	8	25	1.57
5785867--5785894	14	2.0	14	100	0	56	42	14	7	35	1.73
5786581--5786652	2	36.5	2	97	2	137	50	0	0	50	1.00
5790151--5790192	21	2.0	21	95	0	75	26	28	21	23	1.99
5790298--5790345	19	2.5	19	93	0	78	37	12	8	41	1.73
5790401--5790469	31	2.2	31	85	12	97	43	13	7	36	1.71
5790410--5790469	29	2.0	29	90	6	93	43	15	6	35	1.72
5799129--5799160	16	2.0	16	93	0	55	59	6	0	34	1.23

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

The End!