genome.fa.s8506.2.7.7.80.10.50.1000.1.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: VEPZ01008506.1 Hibiscus syriacus cultivar Beakdansim tig00111358_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1253200

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 681 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)
5371--5506	60	2.3	60	77	12	138	30	12	17	39	1.87
6250--6319	29	2.3	32	83	11	94	51	5	4	38	1.45
9118--9204	42	2.1	41	81	10	108	54	9	16	20	1.69
14978--15307	130	2.5	131	80	4	366	42	16	8	33	1.79
15905--15938	17	1.9	18	88	5	52	67	5	5	20	1.33
17244--17288	3	15.0	3	81	9	56	60	0	0	40	0.97
17540--17619	42	1.9	42	82	2	99	33	22	20	23	1.97
17506--18659	233	5.0	233	87	2	1570	33	17	16	32	1.92
20505--20627	11	11.4	11	71	12	85	7	13	2	76	1.10
20503--20584	32	2.5	35	80	11	102	7	15	0	76	0.99
20502--20594	9	11.1	8	74	11	53	6	15	0	78	0.94
20525--20627	44	2.3	43	80	11	111	7	12	2	76	1.11
20866--20901	2	18.0	2	88	0	54	52	2	0	44	1.15
23819--24184	131	2.8	130	80	5	402	42	15	9	32	1.78
23831--24175	129	2.6	131	80	6	378	43	15	8	32	1.78
26131--26168	3	12.7	3	100	0	76	65	0	0	34	0.93
40055--40125	25	2.8	26	75	10	67	35	15	16	32	1.91
40323--40485	24	6.8	24	70	12	111	39	17	20	22	1.92
40278--40500	72	3.1	72	88	0	302	39	16	19	24	1.91
40278--40485	48	4.3	47	72	11	134	40	16	20	23	1.91
46244--46296	26	2.0	26	96	0	97	35	9	26	28	1.87
53839--53895	28	2.0	28	89	0	87	17	26	17	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56096--56145	26	1.9	26	84	8	66	28	8	24	40	1.83
56696--56745	13	4.2	13	73	26	56	52	22	10	16	1.73
56691--56747	21	2.7	21	97	0	105	52	22	8	15	1.70
56691--56747	8	7.9	8	76	21	63	52	22	8	15	1.70
59246--59297	24	2.1	24	82	7	59	73	9	5	11	1.25
59346--59393	24	2.0	24	92	8	80	4	35	0	60	1.16
64200--64324	65	1.9	65	88	0	187	31	16	21	31	1.95
64557--64603	17	2.8	17	83	0	58	61	8	14	14	1.55
75761--75806	20	2.2	21	88	3	67	43	13	17	26	1.85
79216--79296	23	3.5	23	77	9	74	58	16	13	12	1.64
79500--79537	20	1.9	20	100	0	76	65	15	5	13	1.43
83313--83679	131	2.8	130	85	2	495	40	15	11	32	1.83
85690--85719	3	10.0	3	100	0	60	66	0	0	33	0.92
87439--87694	108	2.4	108	80	7	286	48	16	16	18	1.82
88656--88708	24	2.2	24	82	0	70	16	11	30	41	1.84
89273--89331	25	2.4	24	77	5	64	45	0	16	37	1.48
92265--92362	3	33.7	3	91	6	166	65	0	1	33	1.00
92772--92939	60	2.8	60	77	2	169	29	17	4	48	1.66
93076--93236	60	2.8	56	78	16	163	40	4	18	36	1.71
95291--95461	41	4.2	40	71	12	109	49	7	16	26	1.72
101613--101638	9	2.9	9	100	0	52	57	0	30	11	1.34
101805--101829	12	2.1	12	100	0	50	32	16	0	52	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105670--106050	54	7.1	54	79	6	407	30	22	15	30	1.95
105707--106050	161	2.1	161	83	5	428	30	22	15	31	1.94
105670--106050	107	3.5	108	81	6	407	30	22	15	30	1.95
106610--107171	39	14.4	38	79	8	503	41	15	21	21	1.89
106732--106804	23	3.5	22	66	24	59	43	15	23	17	1.87
106595--107171	79	7.4	79	79	6	554	41	15	21	22	1.89
115986--116034	24	2.0	24	100	0	98	36	12	16	34	1.86
116258--116394	21	6.3	22	78	6	136	16	21	25	36	1.94
116258--116347	23	4.0	23	74	9	69	17	22	25	34	1.96
116704--116738	2	17.5	2	100	0	70	48	0	0	51	1.00
123765--123892	30	4.2	30	73	11	91	32	9	25	32	1.88
132204--132249	24	1.9	24	86	8	67	36	2	0	60	1.09
139488--139546	22	2.7	22	91	0	100	25	22	18	33	1.96
143888--143931	17	2.6	17	82	7	54	45	0	18	36	1.49
143995--144040	15	3.0	16	87	6	60	39	17	10	32	1.84
144402--144438	19	1.9	19	88	0	56	56	2	8	32	1.43
151500--151550	15	3.6	14	74	12	52	35	1	15	47	1.57
151720--151754	15	2.2	16	90	5	54	34	14	14	37	1.86
151970--152015	24	1.9	24	95	0	83	23	21	26	28	1.99
152096--152132	19	1.9	19	88	0	56	56	2	8	32	1.43
161890--162091	41	4.9	41	81	3	228	35	16	16	32	1.91
161847--162091	83	3.0	82	74	9	221	35	17	15	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
161872--162091	83	2.7	81	75	10	230	33	16	16	33	1.92
163335--163434	43	2.3	43	91	0	164	31	22	19	28	1.97
171263--171315	21	2.5	21	81	0	61	41	18	37	1	1.62
171693--171798	54	2.0	54	94	0	185	32	25	16	26	1.96
175858--175924	20	3.2	20	64	15	55	38	10	29	20	1.86
175840--175924	42	2.0	42	100	0	170	32	11	29	25	1.91
177201--177379	2	92.0	2	71	19	130	45	2	2	49	1.29
177211--177378	31	5.7	29	69	19	75	44	2	2	50	1.30
177201--177362	57	2.9	58	81	11	169	45	1	2	50	1.25
177504--177650	2	74.0	2	64	20	51	48	2	5	43	1.40
177590--177650	16	4.0	15	76	16	63	52	3	3	40	1.34
177504--177628	20	6.2	20	72	11	69	48	3	4	44	1.40
177927--178073	29	5.0	27	76	17	125	57	3	6	32	1.42
177950--178056	14	7.4	14	76	19	89	58	1	5	33	1.32
177950--178056	7	14.9	7	72	22	64	58	1	5	33	1.32
177927--178056	22	6.0	21	73	19	79	57	3	6	32	1.41
178023--178079	9	7.0	9	73	18	54	54	1	8	35	1.42
177955--178079	22	5.5	24	71	21	60	57	2	6	33	1.37
177955--178098	25	5.9	25	72	22	94	56	2	6	34	1.38
178035--178095	23	2.5	24	82	10	72	50	1	9	37	1.45
178023--178089	17	4.1	17	75	14	61	52	1	10	35	1.45
178059--178122	29	2.3	29	83	5	78	46	3	6	43	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
177950--178079	15	8.1	17	71	24	63	57	2	6	33	1.36
178124--178183	20	2.8	22	80	10	70	46	10	5	38	1.59
178210--178391	11	16.4	11	64	15	70	46	2	3	47	1.33
178210--178400	22	9.2	20	69	18	90	46	2	3	47	1.34
178298--178391	17	5.8	17	70	22	69	47	1	3	47	1.25
178298--178446	24	6.2	24	71	16	114	48	1	4	45	1.31
189575--189610	7	5.1	7	89	0	54	41	0	2	55	1.14
189613--189660	24	2.0	24	84	8	62	31	4	16	47	1.65
193502--193600	40	2.5	40	85	3	119	28	19	14	38	1.90
193779--193833	22	2.5	22	90	0	92	12	45	20	21	1.84
194164--194264	20	5.3	20	78	15	99	48	18	14	17	1.81
195719--195842	42	3.0	40	82	5	135	25	35	12	25	1.92
195942--196132	21	9.1	21	77	6	172	20	12	32	34	1.89
196390--196461	21	3.4	21	86	0	99	23	36	9	30	1.87
196381--196461	42	1.9	42	87	0	117	22	37	9	30	1.87
196406--196482	21	3.7	21	80	3	75	25	37	9	27	1.86
197377--197427	10	5.3	9	79	11	57	15	29	27	27	1.96
197424--197464	5	7.8	5	84	10	55	19	53	21	4	1.63
197434--197471	17	2.2	17	100	0	76	18	47	23	10	1.79
200985--201037	20	2.7	20	73	2	54	47	20	9	22	1.79
201043--201137	20	4.7	20	69	10	50	26	10	21	42	1.85
203680--203745	3	22.3	3	79	3	62	3	28	6	62	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
203655--203745	35	2.6	35	94	1	155	3	27	8	60	1.42
204129--204162	12	2.8	12	90	0	50	14	0	29	55	1.40
204757--204795	15	2.5	15	83	4	51	66	0	5	28	1.12
204935--204983	20	2.4	21	83	10	66	36	14	22	26	1.92
204995--205084	40	2.2	40	79	11	96	38	13	20	27	1.90
205066--205120	19	2.9	19	91	2	85	50	9	18	21	1.74
205133--205204	20	3.5	20	92	1	108	27	19	18	34	1.95
207134--207177	2	22.0	2	100	0	88	50	0	0	50	1.00
217437--217472	17	2.1	17	100	0	72	44	16	16	22	1.86
223275--223352	37	2.2	37	88	9	117	42	19	21	16	1.89

Tables:   1   2   3   4   5   6