genome.fa.s7882.2.7.7.80.10.50.1000.3.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: VEPZ01007882.1 Hibiscus syriacus cultivar Beakdansim tig00110260_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1274288

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 577 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)
549442--549477	4	9.5	4	88	11	58	77	0	22	0	0.76
549441--549470	14	2.1	14	100	0	60	80	0	20	0	0.72
562972--563028	20	2.8	20	97	2	105	47	3	1	47	1.29
566544--566583	21	1.9	21	85	10	55	57	5	0	37	1.21
566832--566919	7	12.6	7	90	0	140	42	40	0	17	1.49
568951--569053	45	2.3	45	83	5	120	33	17	21	27	1.96
569060--569117	20	2.6	22	81	10	66	34	20	18	25	1.96
569829--569874	23	2.0	24	91	4	76	26	17	26	30	1.97
570150--570175	6	4.3	6	100	0	52	30	0	19	50	1.48
570927--570951	10	2.5	10	100	0	50	32	24	16	28	1.96
571534--571582	11	4.5	11	94	0	71	22	16	28	32	1.95
572050--572109	10	5.6	10	74	14	57	48	16	16	18	1.82
572048--572129	22	3.7	22	95	0	146	46	17	17	19	1.85
572059--572121	12	5.6	12	72	14	62	47	19	15	17	1.83
572158--572210	22	2.4	23	78	12	65	20	26	24	28	1.99
572916--572982	23	2.9	23	93	0	107	32	25	23	17	1.97
573058--573089	16	2.0	16	93	0	55	40	18	6	34	1.76
574406--574431	2	13.0	2	100	0	52	0	50	0	50	1.00
574336--574484	79	1.9	79	94	0	262	32	28	10	28	1.89
577830--577941	33	3.4	32	86	4	152	14	8	33	43	1.76
583797--583862	27	2.4	27	94	2	114	31	19	21	27	1.97
583824--583927	45	2.3	45	85	9	133	30	20	15	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595449--595488	21	1.9	21	89	0	62	60	7	7	25	1.50
599316--599349	12	2.7	13	86	9	52	44	8	5	41	1.60
600898--600968	36	2.0	36	88	5	108	35	22	22	19	1.96
607207--607236	15	1.9	16	93	6	53	16	6	16	60	1.56
608365--608399	18	1.9	18	94	0	61	22	20	28	28	1.98
612422--612466	2	22.5	2	95	0	81	48	0	2	48	1.13
617367--617406	20	2.0	20	100	0	80	30	10	30	30	1.90
618554--618609	28	2.0	29	89	3	87	57	3	1	37	1.27
618555--618611	13	4.2	13	77	16	53	57	3	1	36	1.26
618633--618680	25	2.0	24	83	4	60	50	0	4	45	1.21
619074--619111	2	19.0	2	100	0	76	50	0	0	50	1.00
625583--625644	23	2.7	23	80	11	83	22	29	25	22	1.99
627215--627252	18	2.1	18	90	0	58	42	28	26	2	1.69
629358--629405	15	3.1	15	82	8	53	43	0	0	56	0.99
629365--629401	12	3.2	12	88	3	58	45	0	0	54	1.00
630737--630775	19	2.1	19	85	4	53	28	2	2	66	1.18
630769--630828	29	2.1	29	81	12	70	36	6	3	53	1.44
637955--638100	20	7.3	20	92	1	240	22	21	23	32	1.98
640883--640923	18	2.3	18	95	0	73	56	19	17	7	1.64
643822--644083	22	12.0	21	73	13	181	48	8	0	43	1.33
643822--644083	44	6.0	43	80	7	287	48	8	0	43	1.33
643843--644079	66	3.6	66	96	1	422	49	8	0	41	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
644063--644093	12	2.6	12	89	0	53	48	0	0	51	1.00
644063--644105	21	1.9	23	81	13	54	48	0	2	48	1.14
644700--644741	2	21.0	2	95	0	75	47	0	2	50	1.14
649075--649106	13	2.5	13	94	0	55	15	25	43	15	1.86
649083--649130	18	2.7	18	86	0	69	12	20	45	20	1.83
649083--649142	18	3.4	17	81	4	66	11	21	46	20	1.82
651192--651267	31	2.4	32	78	12	86	28	27	25	18	1.98
655584--655633	25	2.0	26	84	4	66	12	14	16	58	1.64
664027--664065	20	2.0	20	89	0	60	38	12	17	30	1.88
665666--665733	36	1.9	35	84	3	91	27	22	20	29	1.98
673665--673718	23	2.3	23	93	0	90	33	27	18	20	1.96
678150--678356	64	3.2	62	83	8	247	32	25	16	26	1.96
678334--678376	19	2.4	19	84	7	54	23	30	18	27	1.98
686836--686978	64	2.2	63	85	8	182	30	26	16	25	1.97
686950--686998	19	2.6	19	84	9	57	24	30	18	26	1.98
691044--691100	22	2.6	22	91	0	96	35	31	10	22	1.88
699228--699264	19	2.0	19	89	5	58	21	24	2	51	1.61
701464--701502	10	3.8	10	83	6	51	23	0	0	76	0.78
701460--701513	22	2.5	23	85	11	78	29	0	0	70	0.88
703411--703441	3	10.0	3	93	6	53	64	0	35	0	0.94
709954--710245	148	2.0	149	91	1	478	29	15	16	38	1.90
729528--729595	24	2.8	25	76	14	72	39	2	4	52	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
729566--729611	23	2.0	24	82	4	58	43	0	6	50	1.28
730561--730619	2	29.5	2	92	0	100	47	0	3	49	1.18
730619--730643	2	12.5	2	100	0	50	52	0	48	0	1.00
732714--732741	6	4.7	6	100	0	56	82	0	0	17	0.68
732805--732846	20	2.0	21	90	4	68	54	4	14	26	1.59
733039--733090	25	2.0	26	85	7	70	67	5	1	25	1.23
734348--734600	104	2.4	103	88	2	362	22	16	27	33	1.96
735295--735387	36	2.5	36	79	8	98	36	11	18	33	1.87
735233--735462	102	2.2	103	79	5	259	36	14	18	30	1.90
735838--735873	19	1.9	18	88	5	54	13	2	30	52	1.55
737229--737295	25	2.8	24	82	8	73	28	20	25	25	1.99
737987--738029	21	2.1	21	86	4	61	9	30	34	25	1.87
738549--738581	3	11.0	3	100	0	66	66	0	33	0	0.92
739022--739106	15	5.7	15	81	0	107	30	4	20	44	1.71
739209--739274	23	2.9	23	75	4	71	18	22	25	33	1.97
740108--740345	126	1.9	126	89	0	368	21	17	26	34	1.95
743173--743482	144	2.2	144	96	0	566	28	20	13	37	1.91
743998--744027	3	10.0	3	100	0	60	66	0	33	0	0.92
751904--751953	25	2.0	25	96	0	91	20	22	16	42	1.89
759304--759334	15	2.0	16	93	6	55	29	6	25	38	1.81
760832--760920	33	2.7	33	80	11	103	40	0	0	59	0.97
761023--761069	24	2.0	24	84	12	62	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
761865--761926	32	1.9	33	90	3	99	51	3	4	40	1.39
761955--761993	19	2.1	19	85	9	53	43	0	10	46	1.37
762057--762087	14	2.2	14	94	0	53	58	12	0	29	1.35
762184--762304	63	1.9	63	96	0	224	36	19	0	42	1.57
762443--763347	138	6.6	138	91	2	1430	35	22	20	22	1.96
762443--763347	275	3.3	271	91	2	1434	35	22	20	22	1.96
766482--766544	26	2.5	26	76	7	67	47	0	1	50	1.10
766497--766549	22	2.5	22	79	14	65	45	0	0	54	0.99
777411--777460	24	2.1	24	92	0	82	32	10	22	36	1.87
783082--783131	24	2.1	24	92	0	82	32	10	22	36	1.87
790421--790584	33	5.0	33	73	5	143	29	26	28	15	1.96
790421--790576	66	2.4	66	86	2	233	28	26	28	16	1.97
796041--796342	36	8.5	34	69	22	142	46	4	5	43	1.47
796257--796337	38	2.1	38	86	6	110	48	2	3	45	1.33
796257--796348	38	2.4	37	82	12	107	47	2	5	44	1.38
796373--796411	11	3.9	10	83	12	53	23	0	0	76	0.78
796351--796418	23	3.1	23	80	16	65	23	2	1	72	1.07
797597--797623	9	3.0	9	100	0	54	11	0	0	88	0.50
797653--797714	15	4.2	14	75	15	54	19	4	1	74	1.09
799427--799471	19	2.4	19	92	3	74	11	13	8	66	1.44
802801--803504	165	4.3	165	97	0	1304	29	25	21	23	1.99
804655--804750	30	3.2	29	74	12	86	43	12	5	38	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
814667--814746	37	2.1	37	86	6	108	55	2	0	42	1.13
820344--820444	33	3.2	32	81	12	118	37	15	10	35	1.83
822859--822887	2	15.0	2	92	7	51	51	0	0	48	1.00
828095--828157	31	2.0	31	87	0	90	41	12	14	31	1.83
840186--841484	324	4.0	324	97	0	2411	41	15	15	27	1.87
846768--846800	17	2.0	17	88	5	50	45	3	0	51	1.16
848706--848780	29	2.6	29	84	0	96	18	40	26	14	1.90
848707--848794	29	3.0	29	84	0	95	20	37	30	11	1.88
849011--849097	29	3.0	29	84	0	120	14	29	39	16	1.88
852187--852270	38	2.2	38	89	0	123	45	10	16	27	1.81

Tables:   1   2   3   4   5