genome.fa.s9645.2.7.7.80.10.50.1000.2.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: VEPZ01009645.1 Hibiscus syriacus cultivar Beakdansim tig00117063_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1081801

Tables:   1   2   3   4   

This is table  2  of  4  ( 446 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)
393145--393181	17	2.2	17	86	13	51	54	0	8	37	1.30
393515--393589	19	4.2	18	77	14	75	45	8	0	46	1.32
397032--397064	16	2.1	16	88	5	50	36	0	3	60	1.12
397984--398023	2	20.0	2	100	0	80	50	0	0	50	1.00
401622--402598	144	6.8	144	80	3	953	16	24	19	39	1.91
404551--404618	32	2.1	32	81	10	77	66	5	4	23	1.32
411361--411492	20	6.6	20	92	1	203	39	15	18	25	1.91
411357--411585	20	11.6	20	85	6	132	34	20	20	24	1.97
411497--411586	38	2.3	39	84	3	110	27	28	23	20	1.99
413305--413429	19	6.5	19	94	2	180	50	21	16	12	1.77
413811--413867	22	2.6	22	82	0	78	19	19	40	21	1.92
414031--414144	20	5.7	20	86	0	156	27	21	24	26	2.00
414031--414168	60	2.3	60	82	2	170	26	21	23	28	1.99
414153--414211	21	2.7	22	78	5	75	33	18	23	23	1.97
414031--414226	20	9.6	20	78	7	153	29	20	23	26	1.99
429419--429446	2	14.0	2	100	0	56	50	0	0	50	1.00
434599--434667	15	4.3	16	75	10	61	17	27	31	23	1.97
434611--434667	15	3.7	15	77	9	69	15	28	33	22	1.95
436441--436497	24	2.4	24	80	11	64	28	1	3	66	1.18
437140--437183	22	1.9	24	82	17	58	61	0	11	27	1.30
448135--448447	157	2.0	154	96	2	581	34	19	13	32	1.91
454335--454402	30	2.3	30	97	0	127	29	20	22	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454436--454490	22	2.5	21	82	8	65	27	0	1	70	0.97
454999--455082	39	2.2	39	82	4	98	23	25	19	32	1.97
454826--455076	125	2.0	126	99	0	495	23	23	19	32	1.98
462688--462771	28	3.2	24	79	17	87	33	13	4	48	1.63
470641--470701	30	2.0	31	87	9	90	26	13	8	52	1.67
474709--474883	81	2.2	81	93	0	296	26	18	15	38	1.91
498629--498701	31	2.4	31	90	0	110	54	15	6	23	1.64
503788--504159	186	2.0	186	100	0	744	33	21	19	25	1.97
510985--511166	100	1.8	100	91	0	301	35	9	9	45	1.70
512427--512503	31	2.5	31	80	2	91	27	31	27	14	1.95
513373--513409	7	5.4	7	87	6	58	27	29	27	16	1.97
513372--513409	20	1.9	20	100	0	76	28	28	26	15	1.96
513428--513495	19	3.5	19	87	2	91	27	29	25	17	1.97
513428--513495	9	7.1	9	73	12	55	27	29	25	17	1.97
514355--514393	20	2.0	20	90	10	62	12	30	33	23	1.92
515250--515309	22	2.7	22	89	5	86	28	21	23	26	1.99
517136--517203	30	2.3	30	92	0	109	23	4	14	57	1.56
527822--527943	32	3.8	32	80	2	120	37	14	13	33	1.86
527876--528007	32	4.1	32	73	3	113	35	15	16	32	1.90
530268--530908	317	2.0	317	95	1	1151	30	11	17	39	1.86
532164--532233	31	2.3	31	87	5	97	35	4	15	44	1.67
532347--532401	2	27.5	2	96	0	101	47	0	1	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535982--536015	16	2.1	17	88	5	52	35	20	5	38	1.77
540146--540196	2	25.5	2	100	0	102	49	0	0	50	1.00
540305--540346	17	2.5	17	81	14	52	59	4	2	33	1.31
541230--541256	13	2.1	13	100	0	54	51	0	0	48	1.00
541727--541793	33	2.0	33	91	0	107	23	10	13	52	1.71
544438--544462	13	1.9	13	100	0	50	8	16	36	40	1.77
544451--544570	61	2.0	61	94	0	213	18	20	35	26	1.95
545039--545093	18	3.5	17	68	31	50	38	0	7	54	1.28
545033--545092	29	2.0	30	93	3	104	38	0	5	56	1.21
545357--545434	30	2.6	29	84	15	97	43	2	8	44	1.49
545378--545458	22	3.3	22	71	23	72	44	1	12	41	1.50
545506--545552	16	3.0	16	81	9	53	34	0	8	57	1.29
546741--546785	23	2.0	23	86	0	63	40	2	2	55	1.24
546735--546785	23	2.5	20	77	20	52	39	1	1	56	1.22
547680--547759	18	4.1	18	68	22	63	50	6	0	43	1.27
547681--547788	18	5.5	21	67	19	54	48	9	0	42	1.35
547674--548030	60	5.8	60	71	14	262	44	10	3	41	1.55
547861--547939	24	3.4	21	70	20	68	48	10	0	41	1.37
547888--547962	24	3.1	24	64	22	57	46	8	0	45	1.32
547863--547970	48	2.2	49	93	1	191	46	11	0	42	1.39
547964--548281	48	6.4	48	88	8	465	47	10	0	42	1.38
548062--548362	58	5.5	58	79	14	302	46	11	0	42	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547863--548281	106	4.1	106	84	12	517	47	10	0	42	1.38
548265--548352	21	4.3	21	67	18	60	45	13	0	40	1.44
548216--548428	60	3.5	60	83	10	247	44	11	0	43	1.44
548325--548362	11	3.4	11	89	10	51	42	18	0	39	1.50
548144--548555	26	16.6	26	69	19	186	45	10	0	43	1.44
548389--548620	72	3.5	68	68	25	210	43	10	2	43	1.50
548331--548625	124	2.4	122	89	4	434	43	10	1	44	1.48
548474--548620	26	6.1	23	74	18	99	43	9	2	44	1.51
548795--548884	18	4.8	18	73	18	67	43	7	0	48	1.31
548797--548840	17	2.4	17	85	11	52	40	4	0	54	1.21
551850--551910	26	2.4	24	76	15	59	42	1	6	49	1.38
552143--552208	18	3.6	18	71	15	53	50	12	0	37	1.40
553309--553390	36	2.3	36	95	0	146	18	36	24	20	1.95
553429--553494	29	2.3	29	83	0	78	7	30	33	28	1.85
554071--554157	32	2.7	32	83	0	111	11	10	28	49	1.72
554718--554793	39	1.9	39	83	0	98	36	11	1	50	1.48
556804--556838	15	2.3	15	90	9	54	54	2	5	37	1.39
556924--556966	12	3.2	13	84	15	61	53	2	0	44	1.13
563395--563483	44	2.0	44	86	0	124	35	7	12	43	1.71
563542--563588	25	1.9	24	82	4	58	57	0	0	42	0.98
565100--565167	35	1.9	35	90	0	109	39	19	19	22	1.92
575166--575277	56	2.0	56	100	0	224	37	25	7	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575377--575504	63	2.0	63	100	0	256	9	30	21	38	1.85
577721--577772	26	2.0	26	96	0	95	46	13	15	25	1.82
584822--584884	25	2.6	25	80	14	69	44	0	1	53	1.10
584830--584884	22	2.3	24	84	9	69	45	0	1	52	1.11
615179--615216	20	1.9	20	100	0	76	28	13	5	52	1.61
616189--616216	14	2.0	14	100	0	56	28	21	21	28	1.99
616297--616351	20	2.7	21	85	2	76	18	20	29	32	1.96
618921--619017	48	2.0	48	100	0	194	36	24	6	32	1.81
624547--624580	18	1.9	17	88	5	50	29	0	5	64	1.17
625222--625252	16	1.9	16	93	0	53	19	29	19	32	1.96
625429--625492	31	2.1	31	82	11	78	32	15	4	46	1.67
631589--631628	2	20.0	2	100	0	80	50	0	0	50	1.00
632721--632758	15	2.6	16	84	16	55	39	0	0	60	0.97
633965--633998	16	2.1	16	88	0	50	32	8	8	50	1.64
634089--634154	31	2.1	32	91	5	109	40	1	3	54	1.25
635633--635667	16	2.1	18	89	10	56	65	0	8	25	1.21
635678--635715	20	1.9	20	88	0	58	63	2	7	26	1.35
636246--636343	34	2.8	35	90	4	153	28	13	13	44	1.81
636895--637831	105	9.0	105	92	1	1461	22	17	25	33	1.96
638503--638660	68	2.4	66	84	4	201	35	8	22	32	1.85
638504--638896	65	5.7	67	73	12	198	38	11	20	28	1.88
638636--638916	36	8.0	35	77	12	263	40	13	19	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
638584--638897	138	2.3	137	84	1	414	39	12	20	27	1.89
638672--638860	102	1.9	103	87	2	283	40	13	19	27	1.88
638778--638950	36	4.8	36	85	4	172	39	16	20	23	1.91
639847--639917	22	3.2	22	91	0	115	26	14	23	35	1.93
640570--640652	16	5.1	15	73	20	62	0	14	8	77	0.99
640554--640643	16	5.7	15	73	19	60	1	14	7	76	1.06
643841--643875	16	2.1	18	89	10	56	65	0	8	25	1.21
644428--644555	37	3.6	35	82	6	132	33	10	12	43	1.76
644451--644550	37	2.8	35	87	4	139	32	12	11	45	1.76
645177--645207	16	1.9	16	93	0	53	38	0	0	61	0.96

Tables:   1   2   3   4