genome.fa.s7858.2.7.7.80.10.50.1000.3.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: VEPZ01007858.1 Hibiscus syriacus cultivar Beakdansim tig00110220_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  969818

Tables:   1   2   3   4   

This is table  3  of  4  ( 442 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)
417393--417421	13	2.3	13	94	5	51	13	58	17	10	1.62
423507--423671	60	2.8	59	75	5	161	37	7	23	31	1.82
425364--425389	2	13.0	2	100	0	52	50	0	0	50	1.00
427051--427078	14	2.0	14	100	0	56	21	42	28	7	1.79
427065--427119	20	2.8	20	82	0	74	30	32	25	10	1.90
427120--427166	23	2.0	23	91	0	76	23	23	38	14	1.92
427179--427247	29	2.3	30	87	5	113	18	30	34	15	1.93
427228--427296	29	2.3	30	87	5	113	15	34	30	18	1.93
427298--427381	33	2.5	33	86	0	105	9	36	27	26	1.87
427364--427394	13	2.3	14	94	5	55	6	32	35	25	1.82
432908--433022	35	3.2	36	91	4	180	45	20	3	30	1.68
432908--433023	36	3.2	36	91	4	182	44	20	4	30	1.71
434591--434623	15	2.2	15	94	0	57	30	33	21	15	1.94
439495--439555	21	3.2	21	65	29	64	42	21	4	31	1.74
439447--439561	35	3.3	35	91	3	178	43	20	5	30	1.74
440238--440276	2	20.0	2	84	5	53	46	5	0	48	1.24
451382--451426	23	2.0	23	90	0	72	55	0	0	44	0.99
452346--452373	2	14.0	2	100	0	56	50	0	0	50	1.00
454720--454745	2	13.0	2	100	0	52	50	0	0	50	1.00
461470--461590	61	2.0	61	82	6	149	34	6	13	45	1.69
462214--462282	31	2.2	31	100	0	138	30	14	18	36	1.91
472261--472304	14	3.1	15	84	12	58	25	6	25	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472624--472698	36	2.1	36	85	7	100	52	4	0	44	1.20
477052--477088	14	2.6	15	87	8	51	62	0	0	37	0.96
477632--477662	16	1.9	16	100	0	62	58	19	9	12	1.62
478475--478507	16	2.1	17	88	11	52	57	0	0	42	0.98
481223--481304	35	2.4	34	85	2	101	15	12	34	37	1.85
492824--492922	52	1.9	52	100	0	198	36	22	9	32	1.85
499339--499425	44	2.0	42	95	4	156	35	10	18	35	1.85
500427--500485	5	11.2	5	75	20	50	35	1	5	57	1.31
500418--500485	13	5.1	13	72	16	50	36	1	4	57	1.28
501510--501596	2	45.5	2	78	13	94	44	3	0	51	1.18
501860--501948	18	4.8	19	69	15	62	16	14	1	67	1.29
511800--511985	100	1.9	99	89	1	291	34	25	20	18	1.96
513577--513640	11	6.3	11	78	14	50	45	1	0	53	1.10
513578--513635	23	2.4	24	77	13	66	43	1	0	55	1.10
513593--513630	12	3.5	11	89	7	51	36	2	0	60	1.11
513926--513950	9	2.8	9	100	0	50	12	0	8	80	0.92
514902--515004	42	2.5	41	86	7	138	52	0	0	46	1.07
515382--515447	29	2.4	28	90	7	100	53	4	4	37	1.42
517768--517813	23	2.0	24	83	12	60	47	4	6	41	1.49
519330--519371	16	2.8	16	79	17	54	59	0	2	38	1.10
519926--519965	21	2.0	21	90	5	64	7	20	5	67	1.34
529939--529977	20	2.0	20	85	10	53	30	15	20	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539524--539570	19	2.5	19	80	13	53	68	4	2	25	1.19
547277--547303	6	4.5	6	100	0	54	14	51	0	33	1.43
555552--555594	20	2.2	20	95	0	77	37	2	13	46	1.57
564924--565002	3	27.0	3	75	14	76	39	0	0	60	0.97
564935--565002	11	6.1	11	83	16	79	38	0	0	61	0.96
564935--565002	14	5.3	13	83	13	72	38	0	0	61	0.96
567305--567333	13	2.2	13	100	0	58	0	6	6	86	0.72
567994--568053	21	2.9	21	69	11	52	53	1	3	41	1.27
568990--569077	10	9.1	10	74	12	85	19	23	29	27	1.98
568990--569079	19	4.7	19	87	6	119	18	25	28	26	1.98
569081--569118	17	2.2	17	95	0	67	18	44	23	13	1.85
569108--569138	7	4.4	7	100	0	62	16	29	29	25	1.96
570886--571208	161	2.0	162	98	1	623	24	27	25	21	1.99
576265--576352	10	9.1	10	74	12	85	19	23	29	27	1.98
576265--576354	19	4.7	19	87	6	119	18	25	28	26	1.98
576356--576393	17	2.2	17	95	0	67	18	44	23	13	1.85
581420--581458	2	19.5	2	100	0	78	48	0	0	51	1.00
581462--581494	12	2.5	14	80	19	52	12	6	39	42	1.67
583618--583744	12	10.6	13	69	19	89	38	0	0	60	1.02
583653--583768	16	7.9	14	64	22	51	42	0	0	56	1.05
583728--583779	19	2.9	17	83	13	61	42	1	0	55	1.10
583736--583779	16	2.5	19	85	10	58	43	2	0	54	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584906--584943	14	2.7	14	91	0	67	31	5	5	57	1.43
585565--585641	30	2.5	30	89	6	111	23	27	11	37	1.89
586229--586337	36	3.1	36	83	1	121	36	1	22	39	1.65
592847--592875	2	14.5	2	100	0	58	48	0	0	51	1.00
602593--602857	132	2.0	132	100	0	530	37	19	14	28	1.91
602738--602935	97	2.0	97	100	0	396	37	21	13	27	1.91
610712--610879	60	2.8	60	81	3	169	41	5	20	32	1.76
615398--615441	12	3.7	12	81	0	52	40	22	9	27	1.84
615395--615436	16	2.6	16	96	0	75	40	21	9	28	1.84
616490--616520	16	1.9	16	93	0	53	41	0	9	48	1.36
617088--617117	2	15.0	2	92	0	51	53	0	0	46	1.00
618927--618965	2	19.5	2	100	0	78	48	0	0	51	1.00
619092--619136	24	1.9	23	86	4	63	57	6	6	28	1.50
621186--621266	32	2.6	32	84	2	110	19	18	8	53	1.70
624129--624179	4	12.8	4	91	0	84	47	23	3	25	1.69
624129--624179	16	3.2	16	97	0	93	47	23	3	25	1.69
627152--627191	2	21.0	2	90	10	66	52	0	0	47	1.00
631088--631132	23	1.9	23	82	13	56	15	26	6	51	1.68
631087--631368	112	2.5	112	94	1	494	28	20	11	40	1.87
631308--631407	39	2.6	39	100	0	200	22	24	8	46	1.78
631331--631394	19	3.3	19	65	26	53	18	26	7	46	1.76
631328--631395	22	3.3	22	66	26	67	17	26	7	48	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631199--631518	151	2.1	151	91	1	516	27	19	11	40	1.86
631080--631630	263	2.1	264	89	0	834	28	19	12	39	1.89
631347--631891	112	4.9	113	86	1	697	28	18	14	38	1.90
632293--632347	22	2.5	22	84	0	74	36	16	14	32	1.89
641064--641114	15	3.3	15	80	5	57	76	0	1	21	0.88
641069--641113	18	2.6	17	82	10	56	77	0	2	20	0.87
650729--650921	27	7.1	27	93	2	316	40	29	23	7	1.81
653045--653141	50	1.9	50	97	0	185	28	20	12	38	1.89
656058--656132	39	1.9	39	100	0	150	29	25	24	21	1.99
662556--663158	301	2.0	301	99	0	1179	39	22	17	21	1.93
665807--665910	24	4.3	24	96	0	163	21	36	24	18	1.95
672690--672714	3	8.3	3	100	0	50	0	32	0	68	0.90
675732--675837	52	2.0	52	100	0	212	54	0	9	35	1.33
677299--677348	16	3.1	16	82	5	57	58	14	10	18	1.63
685977--686010	18	1.9	17	88	5	50	26	2	8	61	1.40
693785--693831	24	2.0	24	100	0	94	48	8	4	38	1.53
694092--694130	18	2.2	18	90	9	62	66	2	0	30	1.05
701529--701601	35	2.0	37	82	10	89	46	5	1	46	1.34
704185--704587	208	1.9	206	93	1	698	25	10	19	44	1.83
726902--726950	22	2.2	22	92	0	80	40	8	0	51	1.32
730700--730751	22	2.4	22	96	0	95	40	0	1	57	1.10
733129--733170	21	2.0	20	90	4	66	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
740696--740743	20	2.4	20	89	6	71	16	4	8	70	1.27
740696--740749	20	2.7	20	80	11	65	18	3	7	70	1.26
741119--741153	17	2.1	17	94	0	61	25	5	8	60	1.49
741151--741319	84	2.0	84	90	2	268	24	15	13	46	1.82
741378--741432	3	18.3	3	80	0	65	38	0	0	61	0.96
742497--742591	48	2.0	48	97	0	181	34	14	7	43	1.74
744285--744323	17	2.4	17	91	4	62	41	0	7	51	1.31
745545--745659	60	1.9	60	83	3	151	39	12	9	39	1.75
746331--746373	20	2.2	19	84	12	52	46	6	2	44	1.43
746596--746655	14	4.5	13	73	21	52	61	1	1	35	1.16

Tables:   1   2   3   4