genome.fa.s6400.2.7.7.80.10.50.1000.4.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: VEPZ01006400.1 Hibiscus syriacus cultivar Beakdansim tig00015426_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1412076

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 869 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)
569021--569095	21	3.7	20	81	3	78	28	25	17	29	1.97
569083--569152	20	3.5	20	84	7	72	40	27	18	14	1.89
569121--569311	20	9.6	20	85	4	215	35	25	17	21	1.95
569102--569311	60	3.5	59	84	3	242	36	25	17	20	1.94
570004--570049	24	2.0	23	87	12	67	26	15	21	36	1.93
570223--570247	12	2.1	12	100	0	50	72	0	28	0	0.86
572546--572779	72	3.3	72	80	8	286	47	17	21	13	1.82
572532--572801	105	2.6	103	91	7	395	46	17	22	13	1.83
572532--572801	53	5.1	52	89	8	406	46	17	22	13	1.83
572513--572805	72	4.2	69	80	13	266	45	18	22	13	1.84
572797--572888	19	5.1	19	81	16	124	14	23	16	45	1.84
572979--573015	14	2.6	14	91	0	65	45	21	0	32	1.52
574418--574542	44	2.9	42	77	9	101	23	17	36	22	1.94
574937--575109	33	4.8	35	82	6	156	45	25	19	9	1.80
575031--575087	14	3.7	14	72	20	51	43	28	21	7	1.78
575012--575104	33	2.8	33	91	0	159	46	24	20	8	1.79
574937--575073	52	2.5	55	88	7	190	45	27	18	8	1.78
574971--575109	52	2.7	52	76	8	165	46	25	20	7	1.78
574937--575109	19	9.6	19	76	12	150	45	25	19	9	1.80
575105--575196	19	5.4	18	72	24	74	8	17	27	46	1.77
575121--575179	14	3.9	14	76	20	64	6	16	28	47	1.72
575105--575228	33	3.7	33	90	1	176	9	17	26	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575154--575210	14	3.7	14	72	20	51	8	22	24	43	1.81
575326--575734	93	4.4	93	99	0	800	45	18	13	22	1.84
577409--577505	20	5.2	20	72	18	100	46	17	24	11	1.81
577407--577471	21	3.1	21	82	4	96	47	15	26	10	1.78
577456--577512	14	3.7	14	75	20	60	43	22	24	8	1.81
577407--577529	33	3.5	33	90	8	165	46	18	24	10	1.81
580849--580875	4	6.8	4	100	0	54	25	0	0	74	0.83
581020--581054	3	11.7	3	100	0	70	0	0	31	68	0.90
581369--581393	12	2.1	12	100	0	50	16	8	16	60	1.58
581917--581961	21	2.1	21	83	0	54	31	31	24	13	1.93
581986--582034	22	2.2	22	82	7	64	32	30	28	8	1.86
582473--582515	2	21.5	2	100	0	86	51	0	0	48	1.00
583432--583486	23	2.4	23	90	0	83	20	25	27	27	1.99
586688--586732	21	2.1	21	83	0	54	31	31	24	13	1.93
586757--586805	22	2.2	22	82	7	64	32	30	28	8	1.86
588275--588479	103	2.0	103	94	0	356	28	14	22	34	1.93
588496--588560	23	2.8	23	92	0	103	20	26	27	26	1.99
590162--590206	21	2.1	21	84	8	56	31	13	6	48	1.68
590717--590865	42	3.5	42	88	3	219	25	21	20	32	1.98
590941--590974	12	3.1	11	91	8	52	29	52	17	0	1.45
591760--591994	21	11.3	19	67	19	87	31	25	20	22	1.98
591759--591853	42	2.3	42	96	0	172	30	25	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591866--591935	20	3.5	20	72	18	72	35	22	21	20	1.96
591845--591994	41	3.6	41	90	0	237	32	26	20	21	1.97
591782--591915	62	2.1	63	93	1	225	30	28	20	20	1.98
595794--595845	2	26.5	2	96	3	97	50	0	0	50	1.00
596536--596584	20	2.4	21	82	6	73	26	22	12	38	1.89
596683--596720	20	1.9	20	88	0	58	36	18	13	31	1.89
601036--601113	31	2.5	31	85	0	111	38	14	14	33	1.86
612357--612395	19	2.1	19	85	0	51	46	2	0	51	1.14
614050--614123	27	2.8	26	83	4	76	24	5	18	51	1.67
614145--614216	24	3.1	23	76	11	67	63	4	0	31	1.13
614161--614220	29	2.0	30	81	15	72	65	3	0	31	1.09
615208--615233	2	13.0	2	100	0	52	50	0	0	50	1.00
617258--617289	12	2.7	12	100	0	64	40	28	25	6	1.79
618571--618667	38	2.7	37	79	14	107	48	5	2	44	1.36
619580--619626	19	2.5	19	80	13	53	57	0	2	40	1.11
621437--621490	28	1.9	28	85	7	74	33	16	9	40	1.80
621556--621712	85	1.8	85	98	0	305	40	0	8	50	1.32
626712--626744	16	2.0	17	88	5	50	51	0	0	48	1.00
627128--627187	15	4.1	14	78	19	61	68	0	5	26	1.10
628534--628590	3	19.7	3	82	10	66	68	0	0	31	0.90
628536--628590	19	2.9	19	83	2	67	67	0	0	32	0.91
628533--628587	22	2.5	22	82	2	67	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
628561--628593	16	2.1	16	94	0	57	78	0	0	21	0.75
628740--630285	454	3.4	456	97	0	2893	34	21	21	21	1.97
628740--630285	76	20.4	76	96	0	2839	34	21	21	21	1.97
630964--631018	22	2.5	22	90	0	92	40	12	10	36	1.79
638408--638507	36	2.8	36	84	4	105	59	6	16	19	1.57
641074--641106	16	2.0	17	88	5	50	51	0	0	48	1.00
641492--641551	15	4.1	14	78	19	61	68	0	5	26	1.10
642842--642892	26	2.0	26	88	0	75	13	17	25	43	1.86
642900--642943	3	14.7	3	81	9	54	65	0	0	34	0.93
642899--642961	15	4.3	15	80	6	67	71	1	0	26	0.95
643194--643286	46	2.0	46	97	0	177	24	6	33	35	1.81
648672--648744	31	2.3	31	88	6	103	46	10	1	41	1.48
649340--649401	20	3.2	19	73	13	63	25	3	1	69	1.13
649443--649485	11	4.0	11	82	14	54	23	2	0	74	0.93
649437--649482	22	2.0	23	91	4	76	26	2	0	71	0.97
649898--649927	14	2.1	15	93	6	53	50	0	10	40	1.36
654098--654166	23	3.0	23	75	8	77	33	24	23	18	1.97
654663--654694	2	16.0	2	100	0	64	50	0	0	50	1.00
658232--658269	2	19.0	2	100	0	76	50	0	0	50	1.00
658571--658639	23	3.0	23	77	8	77	33	24	23	18	1.97
663016--663084	23	3.0	23	82	0	84	28	24	24	21	1.99
663455--663498	14	3.0	14	84	12	61	34	20	13	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
663456--663491	16	2.2	16	95	0	63	36	16	11	36	1.84
663594--663619	2	13.0	2	100	0	52	50	0	0	50	1.00
672134--672225	27	3.5	26	75	10	89	38	5	2	54	1.36
672136--672225	24	3.4	27	74	13	89	38	5	2	53	1.37
672283--672339	27	2.1	27	90	0	87	56	0	3	40	1.17
673550--673586	17	2.2	17	100	0	74	16	54	10	18	1.71
673939--673981	18	2.5	17	77	7	50	27	2	4	65	1.25
674652--674685	2	18.0	2	88	11	54	52	0	0	47	1.00
676821--676874	22	2.4	23	78	9	58	53	0	14	31	1.41
676888--676928	21	2.0	21	85	9	57	43	4	19	31	1.72
677175--677231	21	2.7	21	91	0	87	26	22	26	24	2.00
677968--678032	22	3.0	22	97	0	121	20	21	35	23	1.96
678459--678510	3	16.7	3	77	15	52	1	26	1	69	1.10
689931--689970	3	13.3	3	89	10	64	67	0	0	32	0.91
690763--690807	21	2.0	23	87	8	67	62	0	0	37	0.96
693902--693943	21	2.0	21	81	9	50	50	2	4	42	1.36
694087--694124	10	3.5	11	86	13	53	76	7	2	13	1.11
694088--694125	12	3.7	10	89	10	51	73	10	2	13	1.19
695696--695739	21	2.1	21	100	0	88	36	15	15	31	1.90
695833--695984	84	1.9	84	86	8	224	49	4	0	46	1.22
696033--696081	25	1.9	26	87	4	73	42	0	6	51	1.27
696210--696306	8	11.8	8	71	15	56	44	0	1	54	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
696214--696315	24	4.3	23	73	17	77	46	0	1	51	1.12
696221--696314	48	2.0	48	87	8	138	45	0	2	52	1.12
698367--698455	30	2.9	31	86	3	128	32	4	15	47	1.66
705908--706009	53	1.9	53	100	0	204	49	21	5	23	1.71
708324--708381	29	2.0	29	83	12	75	58	1	29	10	1.41
715162--715654	246	2.0	245	92	2	819	37	16	15	29	1.90
717093--717134	20	2.1	20	90	0	66	47	11	16	23	1.80
717190--717236	17	2.6	17	86	10	58	34	12	27	25	1.92
718090--718210	59	2.1	59	91	0	197	24	16	23	34	1.95
721579--721713	59	2.5	53	78	15	134	21	17	22	37	1.94

Tables:   1   2   3   4   5   6   7   8