genome.fa.s9625.2.7.7.80.10.50.1000.17.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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  17  of  25  ( 2922 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)
5031986--5032089	38	2.8	37	79	11	99	47	4	1	46	1.35
5045646--5045716	23	3.1	23	85	0	97	32	25	23	18	1.97
5047274--5047311	20	1.9	20	88	0	58	28	18	18	34	1.95
5065866--5065953	29	3.0	29	98	0	167	25	15	18	40	1.90
5077718--5077776	13	4.3	14	78	8	50	79	6	5	8	1.04
5077715--5077789	15	5.1	15	73	15	66	80	6	5	8	1.04
5077732--5077796	22	3.0	21	80	17	78	80	6	3	10	1.01
5077717--5077789	18	3.8	18	69	22	58	80	6	4	8	1.00
5078772--5078813	3	14.0	3	100	0	84	66	0	0	33	0.92
5095474--5095654	94	1.9	94	80	8	208	32	14	24	28	1.95
5096107--5096413	45	6.9	44	80	6	305	41	11	16	30	1.84
5096102--5096413	135	2.3	134	86	1	401	41	11	16	30	1.84
5096102--5096413	90	3.5	90	80	1	340	41	11	16	30	1.84
5102412--5102589	95	1.9	96	85	5	254	33	15	22	28	1.95
5102576--5102634	20	2.8	20	82	10	57	28	13	28	28	1.94
5103081--5103389	45	6.9	45	87	1	424	40	10	19	30	1.84
5103044--5103389	135	2.6	135	87	1	480	39	10	20	29	1.86
5103076--5103428	45	7.8	44	83	4	343	39	10	18	30	1.84
5103044--5103432	135	2.9	134	85	3	408	39	10	20	30	1.85
5106964--5107035	15	4.9	15	68	21	53	62	4	27	5	1.36
5106951--5107048	44	2.2	44	98	0	187	58	4	30	7	1.44
5106978--5107053	20	3.5	20	73	26	75	61	2	30	5	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5110791--5112321	763	2.0	763	98	0	2929	25	9	25	39	1.86
5115533--5115636	13	8.0	13	88	4	138	31	22	15	30	1.95
5115533--5115629	39	2.5	39	96	0	176	32	21	14	30	1.93
5115595--5115779	98	1.9	99	86	1	264	34	20	15	30	1.93
5115693--5115734	13	3.2	13	89	0	57	33	19	7	40	1.78
5116850--5116880	12	2.6	12	94	0	53	70	9	6	12	1.31
5119352--5119394	2	21.5	2	100	0	86	51	0	0	48	1.00
5120103--5120141	3	13.0	3	83	0	51	64	0	35	0	0.94
5121850--5121927	37	2.1	37	80	7	86	21	11	12	53	1.70
5123969--5124293	162	2.0	163	97	0	616	32	16	14	36	1.89
5138183--5138241	6	9.8	6	84	12	77	16	11	0	71	1.15
5138180--5138255	18	4.2	18	85	12	95	18	9	1	71	1.20
5138195--5138255	6	10.2	6	80	5	52	19	8	1	70	1.21
5152699--5152887	72	2.6	72	79	2	211	41	15	13	29	1.85
5172851--5172949	30	3.3	30	74	7	92	55	12	12	20	1.68
5174622--5174940	134	2.4	135	84	3	428	25	15	31	27	1.96
5174821--5175047	116	2.0	115	84	4	296	25	14	31	28	1.95
5175377--5175472	40	2.3	40	86	12	124	23	18	33	23	1.97
5174936--5175756	134	6.2	134	82	5	896	25	16	30	27	1.97
5174936--5175758	265	3.1	264	84	4	923	25	16	30	26	1.97
5175672--5175749	40	2.0	39	87	7	113	19	17	38	24	1.93
5178357--5178391	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5182099--5182184	30	2.9	30	76	0	100	56	15	10	17	1.65
5183302--5183553	126	2.0	126	100	0	504	23	22	38	15	1.92
5183737--5183802	3	22.0	3	87	6	80	59	0	0	40	0.98
5183758--5183802	17	2.7	17	93	3	74	62	0	0	37	0.96
5186613--5186674	21	3.2	21	61	25	55	29	19	17	33	1.95
5186613--5186744	36	3.7	36	94	2	230	28	17	17	37	1.92
5186684--5187022	93	3.7	93	81	1	367	28	21	12	38	1.89
5186964--5187041	36	2.2	36	90	2	122	28	16	19	35	1.93
5186857--5187254	128	3.1	128	82	4	462	27	20	12	39	1.89
5187081--5187177	36	2.7	37	76	12	103	30	19	14	35	1.92
5186888--5187269	129	3.0	128	82	5	466	28	19	12	40	1.88
5187647--5187724	31	2.5	31	97	0	147	35	8	19	35	1.83
5194032--5194107	36	2.1	36	90	4	118	26	18	14	40	1.89
5194049--5194122	36	2.1	36	82	5	87	32	18	12	36	1.88
5194491--5194933	139	3.2	138	75	8	382	31	21	15	31	1.95
5196808--5197145	136	2.5	136	93	0	559	29	15	14	39	1.87
5200968--5201030	22	2.9	22	90	0	99	34	22	17	25	1.95
5208681--5208730	20	2.5	20	96	0	91	16	0	18	66	1.26
5210962--5211019	21	2.6	22	86	8	73	31	31	18	18	1.96
5214817--5214890	30	2.5	30	76	10	80	13	29	21	35	1.92
5218394--5218444	23	2.3	23	82	3	59	41	15	13	29	1.86
5221664--5221722	9	6.3	9	80	7	55	27	28	28	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5221668--5221723	19	3.0	18	84	5	67	28	28	26	16	1.97
5228825--5228854	13	2.2	14	94	5	53	23	30	30	16	1.96
5228844--5228899	17	3.3	17	94	0	103	14	23	44	17	1.85
5228825--5228854	7	4.4	7	91	8	53	23	30	30	16	1.96
5228897--5229002	19	5.5	19	89	5	144	29	31	24	15	1.95
5228897--5229003	10	11.1	10	69	15	66	28	30	24	15	1.96
5232281--5232325	23	2.0	23	83	12	58	15	22	11	51	1.75
5239187--5239247	20	2.8	20	79	16	52	26	31	26	16	1.96
5241248--5241281	17	2.0	17	88	0	50	14	2	29	52	1.56
5243140--5243178	14	2.8	14	88	0	60	0	58	0	41	0.98
5243140--5243183	22	2.0	22	86	0	61	0	61	0	38	0.96
5244354--5244424	27	2.7	26	76	12	72	56	2	1	39	1.23
5244600--5244637	14	2.7	15	84	16	62	39	0	5	55	1.23
5245208--5245294	20	4.3	20	97	0	147	35	21	19	22	1.96
5245288--5245333	20	2.3	20	92	0	74	45	23	15	15	1.84
5245208--5245314	40	2.7	41	84	8	123	38	22	17	21	1.93
5245200--5245333	60	2.2	60	79	12	150	39	20	17	22	1.92
5245844--5245882	20	2.0	20	94	0	69	53	17	12	15	1.72
5245889--5245951	20	3.2	20	90	2	101	11	15	23	49	1.77
5245892--5245962	20	3.5	20	84	0	79	14	14	19	52	1.75
5250685--5250737	23	2.2	24	86	3	72	11	16	11	60	1.59
5253761--5253838	21	3.6	22	80	11	81	23	33	19	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5253765--5253825	22	2.9	21	83	9	79	19	34	19	26	1.96
5255221--5255250	16	1.9	15	93	6	51	20	0	13	66	1.24
5255368--5255405	14	2.7	14	91	0	58	5	18	28	47	1.70
5255392--5255440	20	2.5	20	89	0	71	16	16	22	44	1.86
5255425--5255486	29	2.1	29	93	0	106	33	25	16	24	1.95
5255724--5255764	12	3.4	12	89	0	64	19	0	21	58	1.39
5255731--5255765	6	5.8	6	93	0	61	17	0	20	62	1.32
5258034--5258087	24	2.2	24	93	0	90	40	20	18	20	1.91
5258034--5258101	24	2.8	24	84	0	64	38	20	17	23	1.93
5258829--5258866	16	2.5	15	84	12	51	65	0	5	28	1.14
5259005--5259114	20	5.6	20	74	12	86	35	12	19	32	1.89
5259006--5259133	61	2.2	58	81	4	139	35	14	21	29	1.92
5269989--5270097	35	3.0	36	86	5	148	45	17	4	32	1.69
5270029--5270089	20	3.2	21	63	29	55	44	18	3	34	1.66
5274598--5274717	37	3.3	36	86	6	154	45	17	3	33	1.65
5274601--5274710	35	3.1	35	88	3	141	45	17	3	33	1.66
5274649--5274709	20	3.2	21	63	29	55	44	18	3	34	1.66
5275847--5275893	23	2.1	22	84	4	58	36	10	19	34	1.86
5276368--5276430	23	2.7	23	92	0	99	38	20	4	36	1.74
5276851--5276913	23	2.7	23	92	0	99	38	20	4	36	1.74
5277334--5277396	23	2.7	23	92	0	99	38	20	4	36	1.74
5277815--5277877	23	2.7	23	92	0	99	38	20	4	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5278298--5278360	23	2.7	23	92	0	99	38	20	4	36	1.74
5278777--5278839	23	2.7	23	90	0	90	38	19	4	38	1.73
5279258--5279320	23	2.7	23	92	0	99	38	22	3	36	1.70
5275967--5283310	482	15.5	482	96	2	13319	40	10	7	41	1.69
5280658--5280720	23	2.7	23	92	0	99	38	20	4	36	1.74
5281139--5281201	23	2.7	23	90	0	90	38	19	4	38	1.73
5281621--5281683	23	2.7	23	92	0	99	38	22	3	36	1.70
5283015--5283070	23	2.4	23	90	0	94	37	21	5	35	1.76
5283110--5283819	229	3.1	229	96	1	1293	39	7	7	45	1.61
5285746--5285812	16	4.2	16	88	0	89	58	22	10	8	1.59

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