genome.fa.s8136.2.7.7.80.10.50.1000.3.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: VEPZ01008136.1 Hibiscus syriacus cultivar Beakdansim tig00110691_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1585607

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1001 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)
387841--387873	18	1.9	17	88	11	50	30	21	3	45	1.67
397480--397916	226	1.9	225	83	5	569	48	11	7	32	1.68
404464--404508	21	2.1	22	84	12	58	73	0	2	24	0.95
412753--412818	27	2.5	27	90	2	107	46	0	1	51	1.10
418404--418429	2	13.0	2	100	0	52	50	0	0	50	1.00
419094--419145	18	2.8	19	80	8	54	3	5	48	42	1.45
419112--419170	12	4.8	13	77	8	52	3	8	42	45	1.51
422042--422133	45	2.0	45	100	0	184	38	18	10	32	1.86
423936--423972	19	1.9	19	94	0	65	32	29	16	21	1.95
424058--424130	20	3.7	20	96	0	128	41	17	20	20	1.91
424119--424204	40	2.1	39	85	10	111	27	29	20	22	1.99
424140--424204	20	3.2	20	97	0	121	26	29	20	24	1.99
424787--424835	20	2.5	20	86	0	62	20	14	24	40	1.89
424820--424858	20	2.0	20	94	0	69	12	12	17	56	1.67
424822--424866	20	2.2	20	88	0	63	15	13	17	53	1.73
426880--427016	34	3.9	34	79	11	157	35	22	22	18	1.96
426872--427016	74	2.0	74	97	0	272	36	21	22	20	1.95
426863--427017	20	8.4	20	69	16	109	36	22	21	18	1.95
427040--427114	19	4.2	19	72	19	70	18	20	21	40	1.92
427026--427103	33	2.3	34	88	2	113	15	20	23	41	1.90
427113--427157	20	2.2	20	92	0	81	17	11	20	51	1.75
427523--427723	100	2.0	100	97	0	375	24	24	24	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429069--429134	30	2.2	30	97	0	123	30	1	13	54	1.48
429284--429371	20	4.4	20	89	1	124	22	21	22	32	1.98
429321--429530	52	4.0	54	83	4	266	22	19	20	36	1.95
429377--429424	19	2.5	19	75	3	51	22	16	25	35	1.95
429321--429530	106	2.0	106	85	5	282	22	19	20	36	1.95
429482--429550	20	3.5	20	89	0	102	23	20	21	34	1.96
429733--429767	18	1.9	18	94	0	61	20	2	22	54	1.58
432829--432974	20	7.3	20	75	6	125	23	17	26	32	1.97
432984--433036	20	2.7	20	96	0	97	20	20	18	39	1.92
433109--433155	19	2.4	19	89	3	67	27	14	27	29	1.96
433121--433157	19	1.9	19	100	0	74	24	16	27	32	1.96
433709--433747	15	2.5	15	83	4	51	33	0	0	66	0.92
434811--434921	7	15.9	7	69	14	52	24	0	32	43	1.55
434818--434881	21	3.1	20	72	24	60	23	0	32	43	1.54
434814--434895	42	2.0	42	87	4	121	24	0	32	42	1.55
434825--434893	21	3.3	21	73	18	63	24	0	31	43	1.55
434842--434923	28	2.9	28	73	21	82	26	0	30	42	1.56
434813--434907	42	2.3	41	83	8	120	25	0	30	44	1.54
436124--436188	23	2.8	23	92	0	103	36	20	21	21	1.95
436806--436846	17	2.2	20	87	12	61	65	4	0	29	1.13
445733--445763	15	2.1	15	93	0	53	54	0	0	45	0.99
454876--455134	130	2.0	130	96	0	473	40	17	15	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462009--462045	20	1.9	19	89	10	58	45	10	24	18	1.81
462380--462452	36	2.0	36	86	5	103	49	4	0	46	1.21
463394--463455	2	31.0	2	100	0	124	50	0	0	50	1.00
463982--464022	16	2.7	16	85	7	59	29	2	2	65	1.18
467379--467465	35	2.5	34	77	18	90	55	8	8	28	1.58
469817--469870	24	2.2	25	83	3	65	68	1	0	29	1.00
471774--471919	74	2.0	74	98	0	283	32	20	8	38	1.82
472603--472720	59	2.0	60	88	5	177	30	15	16	38	1.89
472943--473055	60	1.9	60	87	7	167	38	15	13	33	1.86
473760--473813	22	2.5	22	96	0	99	22	0	9	68	1.17
473934--473959	2	13.0	2	100	0	52	50	0	0	50	1.00
478006--478054	20	2.5	20	96	0	89	38	12	12	36	1.80
478665--478698	17	1.9	18	88	5	52	44	0	11	44	1.40
481986--482059	23	3.4	23	72	14	84	25	20	18	35	1.96
481953--482057	19	5.1	20	68	17	72	21	20	20	37	1.95
481934--482057	42	3.0	42	88	2	189	22	19	21	36	1.95
482142--482183	6	7.5	6	97	2	63	28	54	16	0	1.42
482146--482186	5	7.6	5	97	2	55	26	53	19	0	1.45
482790--483092	42	7.3	42	90	3	470	35	24	19	20	1.96
482787--483098	21	15.0	21	74	13	252	34	24	19	21	1.96
484177--484284	39	2.8	39	92	0	180	26	26	26	19	1.99
485196--485301	37	2.8	38	97	2	198	43	2	10	43	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485332--485370	16	2.4	16	86	4	51	41	7	2	48	1.45
488144--488195	27	1.9	27	88	0	77	36	1	21	40	1.64
488219--488264	24	1.9	24	90	0	74	34	8	8	47	1.65
490439--490622	93	2.0	92	84	5	237	53	11	2	32	1.50
494283--494418	59	2.3	60	79	5	150	35	17	14	32	1.91
499660--499818	64	2.5	64	88	5	225	25	18	25	31	1.97
499660--499868	64	3.3	64	80	7	221	25	17	24	32	1.97
500325--500358	3	11.7	3	93	6	61	70	0	0	29	0.87
500482--500537	3	18.3	3	96	3	103	66	0	0	33	0.92
500675--500764	9	9.8	9	83	16	114	64	0	2	33	1.06
500691--500764	3	24.0	3	89	10	114	63	0	2	33	1.09
500691--500791	21	4.9	20	82	11	55	67	0	3	28	1.09
501126--501237	37	3.0	37	97	0	206	34	10	13	41	1.79
502121--502157	18	2.0	20	89	10	60	40	5	0	54	1.24
502164--502287	60	2.0	61	81	7	146	35	16	12	35	1.86
503580--503682	53	1.9	54	90	2	163	33	14	6	45	1.71
505033--505080	20	2.5	20	93	3	80	37	6	6	50	1.53
505134--505208	33	2.3	33	97	0	141	38	10	14	36	1.81
512873--512910	2	19.0	2	100	0	76	50	0	0	50	1.00
522843--522880	19	2.0	20	94	5	69	42	5	18	34	1.73
525372--525396	3	8.3	3	100	0	50	32	0	0	68	0.90
528328--528374	20	2.3	20	92	3	76	27	25	12	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528957--528996	2	20.0	2	100	0	80	50	0	0	50	1.00
529024--529068	21	2.1	21	100	0	90	48	0	8	42	1.34
529887--529945	20	2.9	21	74	5	66	27	22	20	30	1.98
529887--530012	41	3.0	41	75	4	119	31	19	19	28	1.97
529830--530478	257	2.5	257	83	3	793	34	16	16	32	1.91
530292--530659	199	1.9	196	84	4	499	33	17	14	34	1.90
530622--530722	42	2.4	42	76	11	109	32	18	22	25	1.97
530440--531061	239	2.6	239	89	2	908	34	16	15	33	1.91
532686--532714	2	15.0	2	92	7	51	48	0	0	51	1.00
540969--540993	2	12.5	2	100	0	50	48	0	0	52	1.00
541094--541132	3	13.0	3	83	0	51	30	0	0	69	0.89
541370--541403	16	2.1	16	89	10	52	32	5	5	55	1.48
548418--548549	22	5.9	22	98	0	237	26	21	24	27	1.99
552375--552423	25	2.0	25	100	0	98	30	12	44	12	1.78
556701--556773	9	8.6	8	77	19	69	80	0	16	2	0.82
556522--556708	7	26.9	7	95	3	256	61	0	24	14	1.33
556707--556761	19	2.9	19	82	15	62	78	0	20	1	0.85
556727--556778	10	5.1	10	84	9	52	84	1	13	0	0.70
556707--556766	28	2.2	28	85	8	79	80	0	18	1	0.80
556687--556773	17	5.2	17	76	6	79	79	0	16	4	0.89
556681--556778	7	13.4	7	80	14	58	78	1	15	5	0.97
558021--558598	135	4.3	135	82	3	635	29	22	15	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558763--558788	3	8.7	3	100	0	52	34	0	0	65	0.93
560899--560933	8	4.6	8	86	13	56	62	0	0	37	0.95
562089--562145	25	2.2	26	84	9	73	57	0	0	42	0.98
562089--562124	3	11.7	3	88	5	54	61	0	0	38	0.96
563470--563498	2	14.5	2	100	0	58	48	0	0	51	1.00
569027--569052	13	2.0	13	100	0	52	92	0	7	0	0.39
584396--584424	12	2.4	12	100	0	58	68	0	24	6	1.13
585028--585062	17	2.1	17	94	0	61	20	25	11	42	1.85
589755--589798	20	2.2	20	88	4	63	36	2	2	59	1.23
589858--589935	26	2.7	30	80	11	83	42	3	1	52	1.27

Tables:   1   2   3   4   5   6   7   8   9