genome.fa.s4096.2.7.7.80.10.50.1000.3.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: VEPZ01004096.1 Hibiscus syriacus cultivar Beakdansim tig00008957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  961865

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 546 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)
418671--418736	24	2.8	24	75	6	62	4	9	6	80	1.02
418674--418730	30	1.9	30	85	7	80	3	10	7	78	1.05
418672--418729	16	3.8	15	75	22	50	3	10	5	81	0.97
426761--426797	18	2.1	19	90	10	60	70	0	21	8	1.13
428095--428148	11	4.4	13	77	15	53	72	0	1	25	0.95
428114--428151	15	2.3	16	86	13	51	76	0	0	23	0.79
428275--428301	2	13.5	2	100	0	54	51	0	0	48	1.00
428359--428385	2	13.5	2	100	0	54	51	0	0	48	1.00
428451--428510	8	6.9	9	83	9	56	51	1	0	46	1.10
428458--428503	2	23.0	2	90	0	74	47	2	0	50	1.13
429981--430020	17	2.5	15	88	8	53	52	2	0	45	1.14
430140--430181	22	1.9	22	85	9	59	42	9	4	42	1.58
430161--430203	16	2.7	16	78	7	52	37	11	9	41	1.74
430190--430230	20	2.1	19	90	4	64	43	4	2	48	1.37
430230--430280	11	4.5	11	80	9	57	43	3	1	50	1.31
430234--430325	24	3.8	24	84	5	105	43	5	2	48	1.38
430234--430295	21	2.8	22	82	9	72	43	3	3	50	1.34
430282--430310	14	2.0	15	93	6	51	41	3	0	55	1.17
430316--430360	21	2.1	22	84	12	58	55	6	0	37	1.26
440124--440177	2	27.0	2	100	0	108	50	0	0	50	1.00
444430--444622	37	5.1	37	76	12	146	46	5	4	44	1.45
444430--444624	38	5.2	38	76	12	172	46	5	4	44	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444586--444686	32	3.2	31	83	10	125	44	3	2	48	1.36
444738--444763	13	2.0	13	100	0	52	15	0	7	76	0.99
448162--448206	19	2.4	19	92	3	74	11	13	8	66	1.44
451266--452355	165	6.6	165	91	1	1663	29	25	21	23	1.99
453125--453225	32	3.2	31	78	13	116	45	3	2	47	1.36
453277--453302	13	2.0	13	100	0	52	15	0	7	76	0.99
474590--474655	21	3.0	21	89	8	89	57	9	10	22	1.60
479135--479174	18	2.3	17	86	4	53	70	0	0	30	0.88
479520--479556	19	2.0	19	94	5	67	43	5	5	45	1.49
489061--489105	23	2.0	23	86	4	65	35	4	15	44	1.67
491883--491934	2	26.0	2	100	0	104	50	0	0	50	1.00
493317--493355	20	2.0	20	84	0	51	69	12	0	17	1.19
494737--494834	3	32.7	3	93	0	169	63	0	2	34	1.06
495153--495824	113	6.0	113	95	0	1130	29	18	14	38	1.90
496668--497045	83	4.6	83	92	2	600	35	23	13	27	1.92
498088--498134	11	4.2	11	81	5	58	0	17	0	82	0.66
498087--498134	12	3.8	12	78	8	51	0	18	0	81	0.70
498086--498134	25	2.0	25	92	8	82	0	20	0	79	0.73
498091--498135	23	2.0	22	91	4	72	0	20	0	80	0.72
498087--498138	13	4.1	13	82	5	70	0	21	0	78	0.74
505398--505430	15	2.3	15	89	5	50	48	3	0	48	1.17
509531--509569	20	2.0	20	84	0	51	69	12	0	17	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510946--511025	3	26.7	3	97	0	151	65	0	1	33	1.01
513185--513210	3	8.7	3	100	0	52	30	0	0	69	0.89
513662--513692	2	16.0	2	93	6	55	48	0	0	51	1.00
517604--517646	21	2.0	21	81	0	50	41	13	9	34	1.77
522087--522131	22	2.0	22	82	0	54	35	0	2	62	1.08
524627--524652	5	5.2	5	100	0	52	23	57	19	0	1.40
526165--526224	18	3.2	18	76	7	57	15	48	21	15	1.81
526205--526259	8	6.5	8	81	12	58	16	34	25	23	1.95
526208--526241	15	2.3	15	94	0	59	14	35	26	23	1.94
527525--527559	18	1.9	18	88	0	52	54	0	17	28	1.43
533105--533265	4	39.0	4	68	21	50	19	6	1	72	1.15
533112--533234	65	2.0	62	84	12	164	19	4	1	73	1.09
533328--533485	9	17.6	9	69	16	64	15	7	3	74	1.17
533346--533382	17	2.2	17	95	0	65	8	10	2	78	1.06
533311--533385	35	2.1	35	83	11	91	13	9	4	73	1.22
533338--533439	53	1.9	54	82	9	129	13	7	3	74	1.18
533394--533453	29	2.1	27	82	11	68	15	8	3	73	1.20
535264--535318	5	10.8	5	77	11	58	5	20	54	20	1.63
535257--535294	17	2.2	17	95	0	67	13	23	47	15	1.81
535281--535317	19	1.9	19	94	0	65	2	16	59	21	1.49
535321--535393	19	3.8	19	87	7	103	31	27	24	16	1.96
535315--535392	9	8.3	9	79	8	84	30	26	26	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542556--542611	5	11.0	5	81	11	69	3	19	55	21	1.58
542579--542605	14	1.9	14	100	0	54	0	14	59	25	1.36
542574--542610	19	1.9	19	100	0	74	0	16	59	24	1.37
542574--542620	24	2.0	24	86	0	67	4	19	53	23	1.63
542605--542642	19	2.0	19	89	0	58	26	23	28	21	1.99
542610--542649	19	2.1	19	90	0	62	27	25	25	22	2.00
543746--543821	17	4.5	17	73	6	64	34	25	3	36	1.74
548313--548355	22	2.0	22	90	0	68	23	37	13	25	1.92
551415--551503	30	3.0	30	91	1	135	31	26	21	20	1.98
551499--551599	31	3.2	31	80	8	132	33	18	18	28	1.95
552484--552539	29	1.9	29	82	7	69	44	23	1	30	1.63
552927--552971	21	2.1	21	87	0	63	15	24	28	31	1.96
556272--556360	30	3.0	30	91	1	135	31	26	21	20	1.98
556356--556456	31	3.2	31	79	8	123	33	17	18	29	1.95
556359--556455	32	3.1	32	78	12	119	35	17	17	29	1.93
557341--557396	29	1.9	29	82	7	69	44	23	1	30	1.63
557784--557828	21	2.1	21	87	0	63	15	24	28	31	1.96
559863--559901	14	2.8	14	96	0	69	35	0	17	46	1.49
560584--560626	18	2.4	18	100	0	86	34	9	23	32	1.87
560626--560662	18	2.1	18	89	0	56	51	10	5	32	1.60
561047--561098	25	2.1	25	96	0	95	42	21	7	28	1.80
561184--561229	20	2.3	20	96	0	83	10	19	28	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
563965--564003	12	3.2	12	88	3	51	12	0	30	56	1.37
564787--564833	20	2.3	20	89	7	69	31	8	27	31	1.87
566011--566061	2	25.5	2	100	0	102	50	0	0	49	1.00
566508--566553	4	11.0	4	86	9	56	26	19	26	28	1.99
566507--566553	18	2.7	18	80	6	62	27	19	25	27	1.99
574334--574404	32	2.2	32	82	9	83	39	1	2	56	1.23
575108--575154	25	1.9	25	83	12	62	40	0	0	59	0.97
579279--579312	15	2.2	16	89	5	52	44	0	0	55	0.99
580235--580304	32	2.3	30	80	9	79	35	2	4	57	1.33
580684--580713	14	2.1	14	93	0	51	63	0	0	36	0.95
585419--585448	2	15.0	2	100	0	60	50	0	0	50	1.00
585641--585720	23	3.4	23	75	13	65	32	1	1	65	1.09
585629--585701	30	2.5	29	80	10	78	30	1	1	67	1.08
585670--585720	20	2.5	20	79	17	61	33	0	1	64	1.05
586956--587010	23	2.3	24	84	6	76	21	16	1	60	1.45
587084--587123	18	2.2	19	86	4	55	32	0	0	67	0.91
588827--588853	2	13.5	2	100	0	54	48	0	51	0	1.00
596301--596343	16	2.7	16	100	0	86	41	0	4	53	1.21
596385--596418	16	2.0	18	88	11	54	26	2	5	64	1.30
596876--597123	130	1.9	130	91	0	406	36	12	14	36	1.85
597519--597594	35	2.2	35	92	0	125	35	1	23	39	1.63
602358--602458	31	3.3	31	77	2	105	42	10	11	34	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604303--604341	20	2.0	20	100	0	78	41	10	15	33	1.81
604803--604846	19	2.3	19	100	0	88	38	11	25	25	1.89
618327--618353	2	13.5	2	100	0	54	51	0	0	48	1.00
628656--628684	3	9.7	3	100	0	58	68	0	0	31	0.89
629505--629738	43	5.4	43	83	3	229	27	18	26	27	1.98
629659--629813	43	3.6	42	78	2	132	22	20	25	32	1.98
629718--629813	42	2.2	44	78	7	108	25	21	23	29	1.99
630181--630242	21	3.0	21	80	4	72	1	35	19	43	1.61
630224--630279	21	2.7	21	85	0	85	0	41	19	39	1.52
632130--632220	46	2.0	46	97	0	173	49	15	24	10	1.76

Tables:   1   2   3   4   5