genome.fa.s8025.2.7.7.80.10.50.1000.3.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: VEPZ01008025.1 Hibiscus syriacus cultivar Beakdansim tig00110500_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2744542

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1393 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)
459134--459248	60	1.9	60	85	3	160	33	20	15	30	1.93
461680--461748	35	2.0	35	97	0	129	28	5	18	46	1.72
461990--462038	26	2.0	24	84	15	64	36	14	6	42	1.70
463805--463841	14	2.4	16	86	13	51	59	5	0	35	1.20
469429--469489	31	2.0	31	84	12	81	59	22	1	16	1.46
471375--471435	23	2.7	23	89	2	88	19	22	32	24	1.97
484170--484199	15	2.0	15	100	0	60	26	20	6	46	1.75
486362--486399	2	19.0	2	94	0	67	47	0	2	50	1.15
486732--486817	9	8.4	9	75	22	73	51	0	1	47	1.08
486743--486827	12	7.8	12	70	21	71	50	0	1	48	1.08
486733--486827	21	4.5	21	94	0	172	51	0	1	47	1.07
487018--487576	287	2.0	283	93	1	947	23	17	15	44	1.86
492507--492583	34	2.3	34	88	0	118	24	7	20	46	1.77
498979--499047	28	2.4	28	92	2	111	40	26	17	15	1.89
503232--503310	28	2.8	28	82	0	104	40	26	17	15	1.89
524114--524143	8	3.8	8	100	0	60	66	0	23	10	1.21
524254--524333	42	1.9	42	81	0	97	22	23	20	33	1.97
523884--524362	249	1.9	247	87	3	694	35	16	15	33	1.90
524170--525043	235	3.5	238	81	11	956	34	15	15	34	1.90
524761--524840	42	1.9	41	87	2	115	23	18	22	35	1.96
524409--525043	254	2.5	253	89	3	918	35	15	14	34	1.89
525185--525272	3	28.7	3	78	13	90	35	1	1	62	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525190--525272	31	2.7	30	88	7	114	36	1	1	61	1.12
525349--525398	25	2.0	25	100	0	100	28	20	32	20	1.97
530574--530642	23	3.0	23	89	0	102	27	24	26	21	1.99
536085--536153	23	3.0	23	82	0	84	27	26	24	21	1.99
538632--539391	261	2.9	260	83	2	986	32	13	17	36	1.89
540441--540501	22	2.8	22	87	0	77	34	40	11	13	1.80
540465--540515	22	2.5	21	76	20	54	37	43	7	11	1.71
541964--542045	2	41.0	2	97	0	155	50	1	0	48	1.08
542111--542157	8	6.1	8	75	9	53	34	0	14	51	1.43
542111--542139	14	2.1	14	100	0	58	34	0	13	51	1.42
542123--542159	18	2.1	18	94	0	65	29	0	18	51	1.47
542126--542165	18	2.2	18	86	0	53	35	2	15	47	1.58
552155--552218	27	2.2	28	83	8	76	48	6	12	32	1.66
557847--557872	2	13.0	2	100	0	52	50	0	50	0	1.00
562601--562637	19	1.9	19	88	0	56	40	8	16	35	1.78
565752--565820	36	1.9	36	85	5	95	49	4	0	46	1.21
578265--578519	54	4.7	54	93	1	413	36	17	13	32	1.89
578265--578519	107	2.4	109	91	2	424	36	17	13	32	1.89
581267--581322	21	2.7	21	82	0	58	25	17	26	30	1.97
589139--589189	20	2.5	20	81	12	59	21	19	19	39	1.93
593390--593438	23	2.1	24	81	11	57	40	2	6	51	1.38
597576--597667	48	1.9	48	93	0	157	45	18	11	23	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601055--601110	23	2.4	23	90	0	85	33	26	21	17	1.96
601022--601110	46	1.9	46	83	0	115	32	22	20	24	1.98
601648--601698	22	2.5	20	80	6	57	21	29	13	35	1.92
601686--601825	63	2.2	63	92	0	226	28	21	15	35	1.93
602995--603063	32	2.1	33	94	2	122	42	13	24	20	1.87
616231--616268	14	2.6	15	83	8	51	57	0	18	23	1.40
619522--619558	17	2.2	17	100	0	74	35	18	10	35	1.86
620059--620520	194	2.3	199	80	6	501	35	18	11	33	1.87
621166--621208	14	3.1	13	81	15	50	69	0	0	30	0.88
621168--621198	15	2.1	14	94	5	53	77	0	0	22	0.77
621310--621365	23	2.4	23	82	8	69	66	1	1	30	1.12
632621--632675	20	2.9	20	81	7	62	43	5	14	36	1.69
633095--633129	2	18.0	2	94	5	63	48	0	0	51	1.00
633159--633189	10	3.1	10	100	0	62	9	9	0	80	0.90
633406--633442	16	2.3	16	100	0	74	40	27	24	8	1.83
634059--634085	13	2.1	13	100	0	54	62	0	0	37	0.95
635528--635625	10	9.8	10	70	18	53	74	0	21	4	0.98
635525--635616	14	6.4	14	73	19	57	75	0	20	4	0.98
635526--635574	15	3.2	15	80	13	55	75	0	22	2	0.90
635525--635609	38	2.3	37	88	6	120	74	0	21	4	1.00
635558--635626	20	3.3	21	82	10	79	75	0	20	4	0.97
635558--635618	13	4.6	12	73	18	50	77	0	18	4	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635558--635618	6	9.2	6	75	16	50	77	0	18	4	0.95
635558--635626	21	3.3	21	78	10	70	75	0	20	4	0.97
635526--635633	29	3.7	29	71	14	80	74	0	22	3	0.98
635741--635767	14	1.9	14	100	0	54	85	0	7	7	0.75
638687--638768	41	2.0	41	85	2	110	26	23	18	31	1.97
639289--639848	134	4.2	133	82	3	627	31	23	14	30	1.94
641026--641080	24	2.3	24	96	0	101	27	20	41	10	1.85
646115--646152	20	2.0	20	89	5	60	13	26	2	57	1.49
650164--650202	21	1.9	20	94	5	69	64	5	12	17	1.46
652471--652514	3	14.7	3	90	0	70	63	0	0	36	0.95
653732--653881	5	31.0	5	72	12	84	74	4	5	16	1.16
653739--653794	17	3.2	17	82	10	60	78	3	1	16	0.97
653746--653817	21	3.5	20	76	14	58	73	4	5	16	1.18
653749--653869	64	1.9	62	82	12	149	73	4	5	15	1.20
653901--653948	16	3.0	15	78	6	51	72	2	4	20	1.11
654010--654053	3	13.7	3	83	9	52	65	2	2	29	1.16
654060--654095	17	2.1	17	94	0	63	80	0	8	11	0.90
654058--654104	22	2.2	22	85	11	62	80	0	6	12	0.88
656904--656970	31	2.2	31	88	0	98	43	10	2	43	1.54
665533--665587	23	2.3	25	84	6	78	61	12	14	10	1.56
665581--665612	16	2.1	16	94	5	57	81	0	12	6	0.87
668869--668914	20	2.3	21	85	7	60	6	21	2	69	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
673574--673612	21	1.9	20	94	5	69	64	5	12	17	1.46
675883--675911	3	9.7	3	100	0	58	68	0	0	31	0.89
677085--677316	9	24.7	9	69	20	74	71	4	4	19	1.21
677118--677308	5	38.4	5	71	14	94	73	4	3	18	1.14
677118--677308	23	8.0	22	68	22	93	73	4	3	18	1.14
677428--677465	18	2.1	18	95	0	67	81	0	7	10	0.87
679196--679267	31	2.4	31	88	9	105	18	16	23	41	1.89
682183--682254	31	2.4	31	88	4	103	20	13	20	44	1.86
683540--683599	29	2.0	31	90	6	97	35	6	16	41	1.75
683664--683730	19	3.5	19	75	6	64	37	10	13	38	1.79
683836--683877	21	2.0	21	90	0	66	26	21	26	26	1.99
683906--683945	20	1.9	21	85	10	55	37	37	10	15	1.80
684161--684230	34	2.1	32	89	5	104	31	15	31	21	1.95
687024--687083	29	2.0	31	90	6	97	35	6	16	41	1.75
687148--687213	19	3.5	19	87	0	87	39	9	13	37	1.77
687288--687327	20	1.9	21	85	10	55	37	37	10	15	1.80
687544--687613	34	2.1	32	89	5	104	31	15	31	21	1.95
690499--690586	38	2.2	43	82	13	107	55	1	1	42	1.14
690621--690664	17	2.6	17	75	13	54	61	0	0	38	0.96
692529--692654	32	3.9	33	76	6	91	31	15	15	36	1.90
695975--696196	44	4.9	45	90	3	324	39	7	21	31	1.80
696799--696823	11	2.3	11	100	0	50	52	8	0	40	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
699994--700028	17	2.1	16	94	5	61	31	11	22	34	1.90
699433--700574	574	2.0	574	97	0	2167	29	25	13	31	1.94
703093--703147	21	2.8	19	75	20	58	32	10	18	38	1.85
704046--704199	23	6.7	23	94	0	254	26	22	17	33	1.96
705626--705698	7	10.4	7	79	5	58	45	31	0	23	1.53
705551--705712	84	1.9	84	91	2	263	45	28	0	25	1.58
705551--705692	42	3.4	42	97	0	266	45	28	0	26	1.54
706004--706047	11	3.9	11	90	3	52	31	0	0	68	0.90
706015--706083	11	6.5	11	70	21	58	36	2	1	59	1.21
708826--709047	45	4.9	45	77	4	241	39	13	19	27	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12