genome.fa.s8113.2.7.7.80.10.50.1000.3.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: VEPZ01008113.1 Hibiscus syriacus cultivar Beakdansim tig00110652_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  992058

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 576 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)
504464--504514	24	2.3	23	80	19	63	56	0	0	43	0.99
504723--504781	23	2.6	23	94	0	100	22	28	28	20	1.98
506696--506814	39	3.1	39	100	0	238	41	12	15	31	1.84
506700--506803	22	5.2	22	62	29	70	42	12	14	30	1.83
508381--508428	3	16.3	3	86	4	71	60	0	0	39	0.97
508379--508434	12	4.3	14	88	6	66	57	1	0	41	1.09
508456--508499	2	22.5	2	82	13	56	47	2	0	50	1.13
513888--513924	15	2.5	15	86	0	56	10	16	64	8	1.47
523255--523284	4	7.8	4	92	7	53	26	0	0	73	0.84
523359--523486	32	3.8	33	78	12	136	26	14	4	54	1.59
523359--523486	34	3.8	33	77	16	131	26	14	4	54	1.59
523854--523883	2	15.0	2	100	0	60	50	0	0	50	1.00
524054--524084	16	1.9	16	93	0	53	12	12	6	67	1.40
524452--524501	21	2.4	21	96	0	91	46	20	16	18	1.85
524601--524827	20	11.2	20	79	3	168	38	21	18	21	1.93
524601--524827	40	5.6	40	86	1	240	38	21	18	21	1.93
524536--524827	60	4.8	60	74	7	173	39	22	18	20	1.93
528143--528197	20	2.8	20	94	0	92	30	23	23	21	1.99
528189--528275	14	5.5	14	69	24	57	43	19	24	12	1.85
528169--528365	33	5.8	33	89	3	268	44	17	22	14	1.86
528202--528426	19	12.8	19	74	18	229	45	16	22	16	1.84
528473--528544	19	3.8	19	98	0	135	15	20	18	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528658--528694	14	2.6	14	86	0	56	48	21	0	29	1.50
530039--530105	21	3.2	21	68	4	55	19	20	35	23	1.95
532195--532238	20	2.2	20	87	0	61	13	13	22	50	1.77
532205--532245	20	2.0	20	90	0	64	14	12	17	56	1.68
532806--533018	20	10.6	20	76	6	214	18	18	25	37	1.94
532808--533018	40	5.2	40	89	0	305	18	18	25	37	1.93
533027--533079	20	2.7	20	85	5	72	13	16	24	45	1.83
532907--533078	61	2.8	60	76	8	143	17	18	26	38	1.92
532808--533079	80	3.4	82	82	6	245	18	17	25	38	1.93
533679--533709	16	1.9	16	93	0	53	12	12	6	67	1.40
534078--534127	21	2.4	21	100	0	100	44	20	18	18	1.88
534162--534214	20	2.7	20	85	5	63	41	22	20	15	1.89
534223--534453	20	11.4	20	80	3	203	38	22	18	20	1.93
534223--534453	40	5.7	40	88	1	266	38	22	18	20	1.93
537766--537820	20	2.8	20	91	0	83	32	21	23	21	1.98
537792--537986	33	5.8	33	88	4	266	44	17	23	14	1.85
537825--538001	19	10.2	19	77	18	199	45	16	22	15	1.84
538139--538163	12	2.1	12	100	0	50	0	28	0	72	0.86
538339--538392	24	2.2	24	90	0	81	38	20	16	24	1.92
539450--539507	20	2.9	20	89	0	89	37	20	22	18	1.94
539658--539694	14	2.6	14	86	0	56	48	21	0	29	1.50
539644--539723	40	2.0	41	80	7	92	52	17	0	30	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541553--541619	19	3.5	19	83	4	89	37	23	23	14	1.93
541608--541665	14	3.9	14	79	16	71	50	25	15	8	1.73
541592--541666	32	2.3	33	93	2	125	46	25	17	10	1.80
541699--541756	14	3.9	14	70	16	53	13	17	24	44	1.85
541682--541773	32	2.8	33	88	3	141	15	17	21	45	1.85
541757--541811	20	2.8	19	83	8	65	16	23	23	36	1.94
542292--542336	18	2.5	18	88	0	72	13	15	44	26	1.83
543651--543692	20	2.1	20	86	0	57	50	21	16	11	1.77
543952--543995	22	2.0	22	95	0	79	18	15	45	20	1.85
560568--560609	20	2.1	20	100	0	84	30	30	23	14	1.94
563683--563764	23	3.6	23	91	0	128	21	26	25	25	2.00
564018--564052	18	1.9	18	94	0	61	57	0	8	34	1.29
564021--564058	15	2.8	13	88	11	51	57	0	7	34	1.28
566787--566838	21	2.5	21	96	0	95	15	3	25	55	1.57
570898--570937	21	1.9	21	94	0	71	30	15	7	47	1.72
570928--571004	33	2.4	32	86	4	118	31	7	15	45	1.75
571820--571864	23	2.0	23	90	0	72	46	8	11	33	1.70
571779--571941	87	1.9	87	93	0	281	42	10	13	33	1.78
572114--573812	182	9.4	182	94	1	2957	27	17	13	41	1.87
572114--573812	725	2.3	725	96	0	3085	27	17	13	41	1.87
572114--573811	543	3.1	545	94	1	2989	27	17	13	41	1.87
576712--576777	33	2.0	33	93	0	114	22	46	0	30	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576815--576855	21	2.0	21	85	0	55	19	24	12	43	1.85
576938--576970	15	2.2	15	94	0	57	9	63	9	18	1.49
579089--579131	20	2.3	18	85	14	61	20	16	11	51	1.75
579094--579140	20	2.4	19	82	10	67	19	17	10	53	1.72
579061--579534	182	2.6	180	87	2	662	26	16	13	43	1.84
579760--579818	29	2.0	29	93	0	100	47	3	10	38	1.54
583760--583819	8	7.1	8	75	16	50	33	0	3	63	1.11
583761--583819	24	2.3	26	80	11	68	33	0	3	62	1.12
584073--584120	23	2.0	24	88	8	71	56	20	10	12	1.65
584567--584614	21	2.3	21	96	0	87	29	31	20	18	1.97
584629--584762	21	6.6	21	76	6	141	19	20	26	33	1.96
584674--584783	19	5.5	19	68	11	76	20	19	22	37	1.94
584653--584795	40	3.5	40	95	1	250	20	18	25	34	1.96
584674--584783	21	5.4	20	67	17	75	20	19	22	37	1.94
584893--584933	6	7.3	6	84	15	61	34	48	17	0	1.47
584900--584931	15	2.1	15	100	0	64	34	53	12	0	1.39
584894--584933	21	1.9	21	100	0	80	35	50	15	0	1.44
584930--584957	5	5.6	5	100	0	56	39	21	39	0	1.54
585559--585731	21	8.3	21	69	16	119	38	25	16	19	1.93
585584--585731	42	3.6	42	84	3	203	39	24	16	19	1.91
587264--587368	53	2.0	53	94	0	183	24	20	15	39	1.91
589481--589536	20	2.8	20	86	0	76	35	16	23	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593164--593191	2	14.0	2	100	0	56	50	0	0	50	1.00
593653--593895	121	2.0	122	99	0	479	25	27	16	30	1.97
596960--596998	20	2.0	20	89	0	60	33	10	23	33	1.88
603380--603418	20	2.0	20	89	0	60	33	10	23	33	1.88
612424--612450	2	13.5	2	100	0	54	51	0	0	48	1.00
619994--620852	182	4.7	182	86	2	1141	42	15	15	26	1.87
624064--624214	46	3.3	46	97	0	277	42	6	18	32	1.76
624363--624458	38	2.5	38	77	0	111	29	21	26	22	1.99
629749--629805	15	3.5	15	70	25	53	19	35	26	19	1.95
629722--629825	34	3.0	35	97	2	201	17	31	30	20	1.95
630232--630382	46	3.3	46	97	0	277	42	6	18	32	1.76
630531--630626	38	2.5	37	88	3	138	27	22	28	21	1.99
631538--631566	15	1.9	15	100	0	58	24	6	55	13	1.63
631729--631795	33	2.0	33	100	0	134	28	0	47	23	1.52
632242--632290	19	2.6	19	96	0	89	32	2	10	55	1.45
632641--633228	202	2.9	200	84	3	729	36	14	16	31	1.90
632641--633726	200	5.5	196	78	10	972	36	14	16	32	1.89
633061--633405	179	1.9	179	86	3	489	34	15	15	33	1.90
636770--636808	15	2.6	15	87	0	51	38	17	7	35	1.79
636809--637975	201	5.8	199	82	4	1303	38	13	16	31	1.87
636810--637975	401	2.9	400	85	3	1531	38	13	16	31	1.87
641923--642627	199	3.5	198	83	6	822	40	13	15	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642665--642784	64	1.9	64	89	3	188	35	10	8	45	1.68
647222--647455	128	1.8	128	98	0	450	22	24	20	32	1.98
647856--647956	34	3.0	34	82	0	130	38	3	3	53	1.38
648475--648568	21	4.5	21	90	5	136	21	27	32	18	1.96
648475--648592	42	2.8	42	81	7	123	22	24	33	19	1.97
648574--648613	21	1.9	21	84	0	53	25	15	35	25	1.94
663728--663876	76	2.0	76	91	0	244	35	4	14	45	1.64
664459--664507	23	2.1	23	84	0	62	51	2	2	44	1.24
666560--666721	64	2.5	63	84	4	191	32	19	24	24	1.98
666709--666766	20	2.6	22	89	10	84	31	20	22	25	1.98

Tables:   1   2   3   4   5