genome.fa.s8490.2.7.7.80.10.50.1000.2.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: VEPZ01008490.1 Hibiscus syriacus cultivar Beakdansim tig00111332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  604809

Tables:   1   2   3   

This is table  2  of  3  ( 345 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)
239112--239211	52	1.9	52	85	0	137	48	14	23	15	1.80
239936--240192	105	2.4	106	94	0	444	34	25	18	21	1.96
240154--240261	43	2.5	43	84	0	135	37	19	18	25	1.94
240048--240366	149	2.1	148	90	0	494	34	23	18	23	1.96
240197--240754	105	5.3	105	96	0	1008	32	24	18	24	1.97
241047--241085	11	3.4	11	89	7	51	41	0	0	58	0.98
242086--242114	2	14.5	2	100	0	58	51	0	0	48	1.00
242398--242442	16	2.6	18	82	13	67	37	0	0	62	0.96
242836--242932	4	25.0	4	68	14	51	20	8	3	68	1.30
242859--242883	10	2.5	10	100	0	50	12	8	0	80	0.92
250361--250422	23	2.7	23	82	5	81	33	24	25	16	1.95
251893--251932	20	2.0	21	85	5	55	42	10	5	42	1.60
252161--252215	21	2.6	21	97	0	101	21	25	25	27	2.00
257543--257602	24	2.5	24	100	0	120	55	11	5	28	1.57
258025--258072	2	24.0	2	100	0	96	50	0	0	50	1.00
268309--268376	3	23.3	3	76	11	70	58	0	0	41	0.98
268350--268382	15	2.2	15	94	0	57	57	0	0	42	0.98
269981--270006	13	2.0	13	100	0	52	15	38	7	38	1.76
277105--277190	8	10.9	8	76	15	81	9	13	1	75	1.10
277117--277190	26	3.0	24	78	9	76	10	13	1	74	1.14
291337--291361	13	1.9	13	100	0	50	56	4	0	40	1.18
297162--297207	18	2.5	19	86	10	69	50	13	0	36	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
299956--300015	3	19.7	3	83	16	79	36	0	0	63	0.95
307127--307168	1	42.0	1	90	0	57	92	0	7	0	0.37
307113--307168	15	3.8	15	85	4	69	87	0	12	0	0.54
307135--307177	13	3.3	13	90	0	59	88	0	11	0	0.52
309441--309764	113	2.9	112	90	3	481	33	16	20	30	1.94
310908--311102	76	2.6	76	96	1	356	36	16	16	29	1.92
310964--311078	34	3.1	34	62	21	79	37	14	17	30	1.90
312499--312553	22	2.5	22	87	0	83	34	14	14	36	1.87
312950--313456	225	2.2	228	86	3	747	37	14	19	28	1.91
312959--313456	113	4.4	113	88	4	700	37	14	19	28	1.91
313247--313640	186	2.1	182	92	3	648	35	15	17	31	1.91
313362--313529	73	2.3	73	90	6	261	34	14	16	34	1.89
313135--313753	295	2.1	296	88	4	910	36	15	18	30	1.91
313433--313821	113	3.5	113	90	2	592	37	14	17	30	1.90
314065--314134	9	7.4	10	81	12	62	38	0	0	61	0.96
314073--314134	3	20.7	3	86	6	90	38	0	0	61	0.96
314065--314132	12	5.7	11	81	14	82	38	0	0	61	0.96
314065--314134	21	3.2	21	81	15	88	38	0	0	61	0.96
315420--315444	9	2.8	9	100	0	50	32	8	0	60	1.26
316152--316259	30	3.5	30	80	7	101	52	5	4	37	1.45
316245--316275	16	2.0	16	93	6	55	54	0	6	38	1.26
321855--321883	14	2.0	15	93	6	51	41	0	10	48	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
322139--322187	23	2.1	24	84	3	64	48	0	0	51	1.00
324051--324091	22	1.9	21	90	5	64	24	0	4	70	1.06
326062--326200	35	4.0	35	92	0	215	25	13	23	36	1.92
332678--332732	20	2.7	20	80	13	58	50	18	0	30	1.47
334081--334223	73	2.0	73	85	2	198	39	18	13	29	1.88
335448--335482	4	8.8	4	87	0	52	48	20	2	28	1.63
339769--339954	31	6.1	30	72	8	117	55	1	6	35	1.36
339765--339831	26	2.5	26	76	11	66	56	0	7	35	1.27
339777--339895	62	1.9	61	84	5	159	57	1	5	35	1.30
341751--341837	20	4.3	20	85	2	104	40	24	16	19	1.91
341762--341850	20	4.4	20	84	0	115	41	20	16	21	1.90
342348--342405	20	3.0	20	92	2	73	10	20	20	48	1.79
342360--342405	20	2.3	20	100	0	92	8	21	21	47	1.77
344378--344419	12	3.5	12	83	0	57	28	2	2	66	1.16
344565--344616	21	2.5	21	90	0	77	25	23	21	30	1.99
344751--344776	12	2.2	12	100	0	52	34	23	15	26	1.94
346068--346207	66	2.2	62	87	7	194	31	0	17	50	1.51
346266--346323	20	2.9	20	86	0	89	43	22	17	17	1.88
346364--346426	20	3.2	20	86	4	92	17	15	23	42	1.88
346602--346685	39	2.2	39	91	0	132	19	14	17	48	1.81
347384--347422	20	2.0	20	89	0	60	48	15	12	23	1.79
347391--347434	20	2.2	20	83	0	52	45	15	18	20	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347443--347487	20	2.2	20	88	0	72	35	26	22	15	1.94
349885--349909	12	2.1	12	100	0	50	0	28	0	72	0.86
350094--350143	24	2.1	24	96	0	91	38	12	20	30	1.88
350100--350151	24	2.2	24	89	0	77	38	15	17	28	1.90
351281--351325	2	22.5	2	100	0	90	51	0	0	48	1.00
353049--353271	106	2.1	106	89	1	340	20	17	26	35	1.95
353178--353720	64	8.5	64	89	1	795	22	19	25	32	1.97
364957--364999	2	21.5	2	100	0	86	51	0	0	48	1.00
366777--366813	16	2.4	16	86	8	51	64	0	5	29	1.15
366970--367040	19	3.7	19	88	5	99	28	9	22	39	1.86
367008--367134	40	3.2	39	80	9	125	22	14	23	39	1.91
367067--367133	20	3.3	20	93	0	116	20	17	25	35	1.95
367067--367153	40	2.2	40	81	4	95	22	16	27	33	1.95
367148--367197	19	2.6	19	90	3	73	20	14	30	36	1.91
369098--369173	32	2.4	33	78	8	86	47	13	5	34	1.65
369216--369250	2	17.5	2	100	0	70	51	0	0	48	1.00
382664--382790	67	1.9	67	95	0	227	30	16	20	32	1.95
390331--390392	18	3.2	19	71	22	56	41	3	6	48	1.45
390451--390505	21	2.5	22	80	11	60	61	0	1	36	1.06
390470--390542	31	2.5	30	86	10	98	63	1	1	34	1.12
390533--390731	30	6.6	32	74	17	126	36	5	1	56	1.30
390533--390695	30	5.3	30	75	13	138	38	5	1	55	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390575--390725	57	2.7	56	77	11	157	37	3	0	58	1.22
390575--390737	85	1.9	86	92	5	276	37	3	1	57	1.24
391328--391371	23	1.9	23	81	9	54	54	2	0	43	1.12
391397--391442	22	2.0	22	84	12	58	41	4	0	54	1.20
394125--394172	12	4.0	12	80	0	60	50	16	16	16	1.79
394153--394211	24	2.5	25	75	10	61	45	13	18	22	1.84
397423--397477	2	27.5	2	85	7	76	47	3	1	47	1.30
400236--400288	23	2.2	24	86	3	72	26	18	24	30	1.98
400250--400296	23	2.0	23	87	0	67	25	19	21	34	1.96
401054--401134	41	2.0	41	100	0	162	50	9	12	27	1.71
404735--404777	20	2.3	19	88	11	70	23	30	9	37	1.86
404740--404777	20	1.9	20	100	0	76	23	28	10	36	1.88
405646--405741	48	2.0	48	93	0	165	38	20	10	30	1.86
406920--406980	21	2.7	23	72	27	58	54	1	1	42	1.20
408114--408339	118	1.9	118	86	3	321	20	18	22	38	1.93
410173--410253	32	2.6	32	82	5	94	43	4	6	45	1.50
422116--422147	3	10.7	3	100	0	64	65	0	34	0	0.93
427195--427258	23	2.8	23	90	0	101	26	26	28	18	1.98
427274--427488	101	2.1	101	94	2	378	36	23	13	26	1.92
428231--428451	64	3.5	64	84	7	254	28	18	19	33	1.96
433035--433098	23	2.8	23	80	4	85	28	26	25	20	1.99
433114--433331	103	2.1	103	93	0	391	36	23	13	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434080--434235	63	2.5	64	82	9	185	26	19	20	33	1.96
435666--435707	22	1.9	22	85	9	59	50	0	0	50	1.00
436411--436607	73	2.7	73	91	0	313	30	14	12	42	1.83
436682--436796	36	3.2	36	71	11	117	41	13	13	30	1.84
436647--436831	37	5.1	37	69	9	121	38	12	14	34	1.85
436628--436913	146	1.9	148	83	4	373	37	12	16	34	1.86
436628--436841	73	2.9	73	92	0	347	39	12	14	32	1.84
437704--438047	123	2.8	123	87	3	505	40	16	16	26	1.90
441793--441869	31	2.5	31	82	2	100	28	31	25	14	1.95
441746--441869	63	2.0	63	82	6	153	26	29	27	16	1.97

Tables:   1   2   3