genome.fa.s9574.2.7.7.80.10.50.1000.3.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: VEPZ01009574.1 Hibiscus syriacus cultivar Beakdansim tig00116939_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2686660

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  3  of  14  ( 1597 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)
515664--516113	80	5.6	80	87	2	573	24	18	24	32	1.97
516889--517149	95	2.7	96	83	4	314	32	18	15	33	1.92
521614--521689	12	6.4	12	73	7	57	72	3	2	21	1.13
528257--528432	89	2.0	89	90	2	282	35	11	6	46	1.67
532787--533078	143	2.0	145	96	2	536	40	19	15	24	1.91
534121--534226	53	2.0	54	86	1	151	37	17	11	33	1.86
535759--535792	17	2.0	17	94	0	59	35	0	14	50	1.44
536681--536738	15	3.9	15	72	22	59	31	1	36	31	1.68
536696--536759	29	2.2	30	86	8	87	34	1	32	31	1.68
537609--538370	111	7.0	111	86	4	1050	28	16	24	31	1.96
537609--538370	220	3.5	222	85	5	1047	28	16	24	31	1.96
538597--538852	127	2.0	125	96	3	478	29	14	16	39	1.89
542254--542286	16	2.1	16	88	11	50	75	0	9	15	1.03
542882--542931	24	2.1	24	85	7	66	56	14	4	26	1.56
552502--552606	37	2.8	37	85	0	147	40	15	14	30	1.87
553014--553064	25	2.0	26	96	3	95	27	3	11	56	1.52
553284--553451	12	13.4	12	70	17	67	24	4	2	67	1.24
553392--553485	12	7.5	12	69	23	52	19	7	1	72	1.14
558522--558599	22	3.5	22	85	1	102	39	26	11	21	1.88
559426--560881	106	13.9	106	87	4	1981	33	24	18	23	1.97
559426--560881	312	4.6	317	89	4	2139	33	24	18	23	1.97
559426--560881	418	3.5	424	86	4	2010	33	24	18	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561612--561708	37	2.6	37	86	0	140	41	16	10	31	1.82
562247--562307	2	31.0	2	96	3	115	50	0	0	49	1.00
562532--562557	4	6.5	4	100	0	52	23	0	0	76	0.78
562583--562617	17	2.1	17	89	5	54	14	11	0	74	1.08
562777--562834	13	4.5	13	79	14	57	20	5	0	74	1.01
562511--563029	258	2.0	261	93	5	905	28	12	9	49	1.72
563345--563377	16	2.1	16	88	11	50	75	0	9	15	1.03
563817--563866	24	2.1	24	88	7	75	58	14	2	26	1.47
569122--569182	21	2.9	21	97	0	113	39	14	21	24	1.91
573426--573462	2	18.5	2	100	0	74	48	0	0	51	1.00
573632--573761	2	66.5	2	80	10	117	49	1	3	45	1.29
576753--576833	10	7.6	10	76	17	83	35	1	23	39	1.63
576752--576822	23	3.1	23	78	8	83	33	1	23	40	1.64
576798--576849	20	2.6	20	87	6	70	32	3	25	38	1.74
576863--576887	13	1.9	13	100	0	50	40	0	16	44	1.47
581124--581205	31	2.7	31	92	1	130	37	12	20	29	1.89
599504--599588	33	2.5	33	86	3	116	57	1	0	41	1.06
599568--599600	2	16.5	2	100	0	66	51	0	0	48	1.00
599957--599995	20	2.0	20	89	0	60	53	2	0	43	1.14
602419--602505	33	2.7	33	83	1	104	32	28	18	20	1.96
608440--608506	31	2.2	31	86	0	89	20	13	17	47	1.81
608512--608568	28	2.0	28	89	0	87	14	24	21	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609564--609615	16	3.2	17	72	22	58	42	0	21	36	1.53
610453--610582	30	4.3	30	94	1	208	30	25	22	21	1.99
610507--610632	31	4.1	31	87	3	103	33	23	21	22	1.97
611697--611741	21	2.1	21	87	0	63	15	24	28	31	1.96
615027--615181	30	5.1	30	92	1	213	32	25	21	20	1.98
615111--615206	31	3.1	31	84	3	95	35	22	19	21	1.96
615702--615764	2	31.5	2	100	0	126	49	0	0	50	1.00
616321--616365	21	2.1	21	87	0	63	15	24	28	31	1.96
617772--617855	31	2.8	29	75	12	80	41	3	11	42	1.59
619178--619218	2	20.5	2	100	0	82	48	0	0	51	1.00
629085--629148	23	2.8	23	80	0	65	31	25	23	20	1.98
629111--629155	23	2.0	23	86	0	63	28	20	24	26	1.99
635884--635950	23	2.9	23	84	0	80	28	26	25	19	1.99
637544--637638	29	3.2	29	68	20	70	40	18	6	34	1.77
637572--637729	44	3.5	45	78	7	144	38	20	6	34	1.78
638718--638792	36	2.1	36	100	0	150	21	22	10	45	1.82
642864--642946	5	17.6	5	73	14	70	77	0	6	16	0.97
642869--642946	23	3.3	23	80	18	74	76	0	6	16	0.98
642881--642941	27	2.2	27	85	11	79	77	0	6	16	0.98
642864--642951	24	3.7	23	78	15	67	77	1	5	15	1.02
642865--642946	9	8.8	9	77	18	71	76	0	6	17	0.97
643035--643076	13	3.1	14	87	12	61	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
643044--643076	7	4.7	7	88	11	50	69	0	0	30	0.88
644294--644344	2	25.5	2	77	15	52	50	0	3	45	1.20
644294--644342	21	2.3	21	86	6	73	51	0	4	44	1.20
646451--646490	21	2.0	21	90	5	64	0	20	2	77	0.88
656399--656540	70	2.0	70	97	0	266	35	12	13	38	1.83
656778--656843	4	16.5	4	78	12	55	75	1	6	16	1.07
656769--656843	30	2.5	28	76	18	71	74	1	6	17	1.10
656854--657003	66	2.2	66	80	13	164	64	2	4	29	1.26
656969--657037	26	3.0	21	72	22	59	66	1	5	26	1.22
658262--658304	19	2.3	19	80	8	52	48	4	2	44	1.36
660271--660596	167	2.0	164	93	6	563	33	11	19	34	1.88
661150--661198	3	16.0	3	87	4	71	30	2	2	65	1.15
662717--662749	2	17.5	2	87	12	52	48	0	0	51	1.00
662710--662750	16	2.5	16	88	4	55	43	0	0	56	0.99
663911--663991	40	2.0	41	97	2	155	39	9	2	48	1.50
670089--670274	92	2.0	92	97	2	356	25	20	25	28	1.99
676158--676208	3	16.3	3	76	15	50	31	1	1	64	1.15
676161--676212	10	5.2	10	79	6	61	30	1	1	65	1.14
676159--676201	21	2.0	21	90	0	68	30	2	2	65	1.18
683477--683541	25	2.6	25	74	13	64	23	0	3	73	0.97
683477--683549	16	4.4	16	82	6	67	23	1	2	72	1.05
689730--689832	52	2.0	52	98	0	197	21	23	13	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
694313--694415	52	2.0	52	94	0	179	20	22	13	43	1.86
707066--707343	45	6.2	45	80	3	247	28	19	10	41	1.85
707071--707338	135	2.0	135	80	2	306	28	19	10	41	1.84
707758--707813	22	2.7	20	84	10	85	25	33	14	26	1.94
707758--707829	22	3.5	20	83	9	67	27	33	12	26	1.92
707876--707927	18	2.6	19	85	14	70	28	26	15	28	1.96
714140--714315	45	3.9	45	93	1	255	30	21	9	39	1.85
714155--714354	90	2.2	90	84	3	251	30	23	10	37	1.87
714155--714354	45	4.4	45	88	1	159	30	23	10	37	1.87
714292--714442	79	1.9	79	89	2	232	27	24	11	36	1.90
714847--714902	22	2.7	20	78	13	67	25	37	10	26	1.88
714847--714905	21	2.7	22	82	10	77	25	37	10	27	1.88
723567--723626	22	2.7	22	94	0	111	40	5	18	36	1.72
725943--725975	14	2.2	16	89	10	52	33	21	12	33	1.90
728994--729048	7	7.9	7	78	8	58	45	30	0	23	1.53
728994--729049	14	4.0	14	81	9	78	44	32	0	23	1.53
728993--729046	28	1.9	28	92	7	92	48	27	0	24	1.52
733156--733188	5	7.0	5	86	13	52	21	0	21	57	1.41
734183--734221	18	2.3	18	86	8	55	7	5	2	84	0.84
736280--736408	48	2.7	48	80	6	154	31	30	15	23	1.95
741528--741564	17	2.1	18	90	5	58	24	18	21	35	1.96
742265--742429	54	3.0	55	77	7	190	38	18	9	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
742250--742430	56	3.3	54	78	6	193	40	18	8	32	1.81
742638--743950	54	24.3	55	78	11	672	40	18	9	31	1.82
742901--742988	45	2.0	45	86	4	124	36	19	10	34	1.85
742946--743960	54	18.9	54	81	6	1100	40	19	9	30	1.82
742946--743960	107	9.5	108	82	6	1052	40	19	9	30	1.82
750613--750651	6	6.5	6	100	0	78	84	15	0	0	0.62
755036--755382	170	2.0	170	96	0	631	27	17	18	36	1.93
756342--756379	19	2.1	19	90	5	60	68	2	5	23	1.23
765302--765356	12	4.7	12	88	2	85	25	40	0	34	1.56
772729--772771	21	2.0	21	100	0	86	30	23	13	32	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14