genome.fa.s8142.2.7.7.80.10.50.1000.1.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: VEPZ01008142.1 Hibiscus syriacus cultivar Beakdansim tig00110704_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  459836

Tables:   1   2   

This is table  1  of  2  ( 200 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)
8758--8834	38	2.0	38	87	0	109	24	29	11	33	1.91
12611--12660	24	2.1	24	85	3	66	22	4	12	62	1.46
12687--12815	64	2.0	66	92	6	219	42	3	5	48	1.44
13043--13130	30	2.8	31	75	11	90	39	9	11	39	1.73
13037--13145	32	3.5	32	73	5	96	40	7	11	41	1.68
13289--13339	24	2.1	25	88	3	77	37	27	3	31	1.75
13932--13958	2	13.5	2	100	0	54	48	0	0	51	1.00
14850--14960	55	2.0	55	91	0	177	26	18	18	36	1.95
17238--17406	84	2.0	84	92	0	284	23	12	25	39	1.89
41608--41671	29	2.2	30	80	8	78	59	7	0	32	1.26
42349--42551	110	1.9	109	80	1	244	35	12	16	34	1.87
49912--50037	60	2.1	61	96	3	236	53	7	8	29	1.60
50093--50138	22	2.0	23	83	4	58	41	10	6	41	1.66
52664--52749	31	2.8	31	77	5	95	47	2	3	46	1.32
53175--53234	29	2.1	29	93	0	102	15	21	41	21	1.89
53211--53256	23	2.0	23	100	0	92	17	17	43	21	1.88
53268--53301	16	2.1	16	94	0	59	8	11	52	26	1.67
53284--53369	40	2.2	40	97	0	163	6	13	50	29	1.68
53705--53753	22	2.2	21	82	7	53	44	2	2	51	1.24
54338--54371	3	11.3	3	100	0	68	64	0	0	35	0.94
55434--55530	38	2.6	37	80	8	97	28	18	10	42	1.83
56858--56944	31	2.9	28	72	23	70	41	4	5	48	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64696--64751	2	28.0	2	100	0	112	50	0	0	50	1.00
71960--72119	41	3.9	41	94	3	286	40	20	7	31	1.80
73660--73714	20	2.8	20	94	0	92	49	14	0	36	1.44
73653--73714	20	3.0	22	88	7	69	48	12	0	38	1.42
73795--73840	20	2.3	20	85	7	58	50	0	0	50	1.00
74423--74461	15	2.6	15	84	8	53	33	0	0	66	0.92
82624--82699	36	2.1	36	97	0	143	43	14	10	31	1.79
83404--83475	31	2.5	29	86	8	94	31	20	18	29	1.96
90571--90606	16	2.2	16	100	0	72	30	13	0	55	1.39
90575--90616	16	2.9	14	86	10	50	33	11	0	54	1.37
96138--96182	21	2.1	21	87	0	63	31	28	24	15	1.96
96957--97112	31	5.0	31	92	1	251	21	19	21	37	1.95
98691--98736	2	23.0	2	100	0	92	50	0	0	50	1.00
105761--105787	2	13.5	2	100	0	54	51	0	0	48	1.00
109337--109368	2	16.0	2	100	0	64	50	0	0	50	1.00
118121--118403	41	6.9	41	74	13	165	35	15	19	29	1.93
118109--118382	82	3.3	82	77	8	254	35	16	20	28	1.94
118121--118275	81	1.9	83	90	2	251	35	19	20	24	1.96
118286--118445	41	4.0	40	83	5	187	36	13	17	32	1.89
118268--118447	41	4.4	40	74	14	127	34	13	17	35	1.88
119705--120029	125	2.6	124	80	9	333	28	19	17	35	1.94
119705--120031	41	7.9	41	79	8	306	28	18	17	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
119705--120071	82	4.5	81	79	6	323	28	17	17	35	1.93
120020--120114	43	2.3	42	90	3	147	29	11	18	40	1.86
128107--128201	21	4.5	21	78	8	77	43	22	33	1	1.60
128822--129202	43	8.9	43	82	4	421	34	24	14	27	1.94
128888--129200	171	1.8	171	86	1	448	32	23	15	29	1.95
130907--130964	2	29.0	2	100	0	116	50	0	0	50	1.00
139210--139245	18	2.0	18	94	0	63	16	47	22	13	1.82
141685--141778	24	3.9	24	87	6	136	24	14	20	40	1.90
155550--155617	34	2.0	34	94	0	118	45	13	1	39	1.52
157783--157911	64	2.0	64	98	0	249	27	12	19	40	1.87
158783--158841	24	2.5	24	97	0	109	32	11	23	32	1.91
164188--164241	2	27.0	2	100	0	108	50	0	0	50	1.00
172237--172263	2	13.5	2	100	0	54	48	0	0	51	1.00
175051--175086	17	2.1	17	89	0	54	30	16	22	30	1.96
175903--176391	72	6.6	73	83	5	547	34	13	13	39	1.83
175903--176390	219	2.2	226	82	5	604	34	13	13	39	1.83
177260--177297	20	1.9	20	88	0	58	26	26	5	42	1.76
177683--177716	15	2.3	15	89	0	50	41	17	8	32	1.80
177689--177718	15	2.0	15	100	0	60	40	13	6	40	1.71
178380--178466	23	3.4	27	80	13	112	43	0	2	54	1.13
178391--178530	13	11.2	12	71	16	81	45	0	2	52	1.12
178420--178565	36	4.2	36	69	23	100	43	0	2	54	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
178398--178586	62	3.0	62	95	2	333	43	0	2	53	1.12
178581--178642	19	3.3	19	78	15	58	37	1	0	61	1.06
182195--182249	12	4.6	12	83	0	74	12	16	47	23	1.81
182281--182324	13	3.5	13	93	3	72	13	15	52	18	1.75
195198--195250	27	2.0	27	96	0	97	3	24	0	71	1.02
195199--195256	27	2.1	27	90	0	89	3	27	0	68	1.05
197365--197423	28	2.1	28	100	0	118	22	28	10	38	1.86
202168--202205	20	1.9	20	94	0	67	44	10	23	21	1.83
202168--202211	20	2.3	19	88	7	63	45	9	25	20	1.80
208794--208910	57	2.1	57	86	3	164	46	9	11	33	1.72
211571--211611	18	2.2	19	83	12	50	56	4	2	36	1.34
212280--212330	25	2.0	25	85	7	68	35	21	5	37	1.78
220077--220129	27	2.0	27	92	0	88	26	15	24	33	1.95
223915--223979	20	3.3	20	70	12	53	52	6	3	38	1.42
224482--224541	31	1.9	32	86	10	88	23	16	16	43	1.87
228265--228310	16	2.9	16	87	6	58	19	0	36	43	1.51
228264--228366	7	14.1	7	83	8	89	19	0	33	46	1.50
228790--228841	16	3.2	16	74	12	52	42	1	1	53	1.23
228830--228890	30	2.1	29	84	6	79	40	3	1	54	1.27
231877--231926	23	2.2	22	85	3	64	34	8	6	52	1.55
241137--241263	51	2.5	50	88	1	173	17	35	29	17	1.93
241374--241414	10	4.1	10	84	12	57	31	29	0	39	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
241435--241463	14	2.1	14	93	6	51	27	6	0	65	1.18
243159--243193	18	1.9	18	100	0	70	37	28	11	22	1.89
243647--243730	41	2.0	42	88	2	125	33	22	16	27	1.96
243855--243894	17	2.3	18	91	4	64	27	25	25	22	2.00
247888--247995	50	2.2	50	86	3	146	21	30	30	17	1.96
248704--248729	2	13.0	2	100	0	52	50	0	0	50	1.00
249563--249590	2	14.0	2	100	0	56	50	0	0	50	1.00
250133--250196	2	32.0	2	100	0	128	50	0	0	50	1.00
252547--252613	33	2.0	33	94	0	116	40	19	7	32	1.79
252933--253030	48	2.0	48	94	0	169	44	12	19	23	1.84
257048--257103	23	2.2	27	78	18	66	26	0	30	42	1.56
260836--260894	21	2.8	21	72	10	57	32	27	15	25	1.95
261766--261816	26	1.9	27	92	4	86	33	13	17	35	1.89
263686--263796	58	1.9	58	88	1	170	35	9	17	38	1.81
272549--272586	3	12.7	3	100	0	76	31	0	0	68	0.90
272748--273023	37	7.4	37	83	6	315	46	2	5	45	1.39
272991--273043	26	2.0	26	85	0	70	41	1	3	52	1.30
272993--273047	28	2.0	28	85	7	76	40	1	3	54	1.28
272748--273023	38	7.4	37	80	9	283	46	2	5	45	1.39
279286--279329	23	1.9	23	85	0	61	54	4	2	38	1.33
283322--283372	18	2.8	18	82	11	59	29	5	3	60	1.38
287595--287625	1	31.0	1	93	0	53	0	0	3	96	0.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
302492--302606	35	3.4	35	71	9	94	56	6	26	11	1.57
302508--302698	66	2.9	66	82	1	204	53	8	25	11	1.65
302691--302740	21	2.4	21	75	0	55	54	6	30	10	1.58
302573--302862	153	1.9	153	83	2	377	51	8	29	11	1.66
302634--302804	87	2.0	87	81	4	202	50	8	30	11	1.67
302721--303150	66	6.2	66	69	13	200	51	8	28	11	1.68
302508--303194	219	3.1	219	90	1	1085	51	8	28	11	1.67
303224--303318	33	2.9	33	82	3	111	44	10	34	10	1.73
305928--305992	33	2.0	33	85	11	89	47	4	33	13	1.64
305975--306553	66	8.8	67	76	6	565	54	8	26	10	1.64

Tables:   1   2