genome.fa.s8011.2.7.7.80.10.50.1000.3.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: VEPZ01008011.1 Hibiscus syriacus cultivar Beakdansim tig00110474_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1648842

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 811 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)
482449--482506	20	2.8	20	75	15	55	39	1	3	55	1.27
486165--486268	53	2.0	53	98	0	199	32	21	18	27	1.96
491661--491700	3	13.3	3	100	0	80	65	0	0	35	0.93
492157--492220	18	3.6	17	83	6	65	12	43	7	35	1.71
495259--495354	21	4.7	20	73	6	66	35	22	19	21	1.96
495322--495515	20	9.6	20	82	6	87	35	26	18	19	1.95
495322--495515	40	4.8	39	84	3	217	35	26	18	19	1.95
495322--495514	60	3.2	60	83	3	253	35	26	18	19	1.95
495890--495960	33	2.2	33	94	0	124	11	23	16	47	1.79
496029--496096	32	2.1	33	91	2	111	44	25	23	7	1.79
496092--496218	19	7.1	19	71	21	87	11	23	18	45	1.83
496114--496170	14	3.7	14	77	20	60	8	22	22	45	1.80
496097--496218	33	3.5	33	86	9	154	11	22	18	46	1.81
496154--496216	20	3.2	20	73	8	74	14	23	15	46	1.83
497904--498181	93	3.1	93	95	3	496	22	12	19	45	1.84
498224--498352	19	7.3	19	76	17	107	48	25	16	10	1.77
498259--498352	33	2.8	33	87	4	136	50	23	17	9	1.75
498348--498519	19	9.6	19	77	11	150	11	19	23	45	1.82
498370--498425	14	3.7	14	80	17	67	10	21	23	44	1.83
498353--498444	32	2.8	33	91	3	159	10	20	21	46	1.81
500441--500477	14	2.6	14	88	12	58	32	0	18	48	1.49
500584--500681	19	5.4	19	82	13	134	45	17	21	15	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500584--500700	53	2.2	53	96	1	218	44	17	23	14	1.86
500714--501031	86	3.7	87	87	10	387	13	22	18	45	1.84
500690--501017	53	6.3	51	87	7	310	14	21	17	45	1.85
500718--501031	139	2.3	139	99	0	621	13	22	18	45	1.84
500884--501050	53	3.2	53	85	6	189	13	20	19	45	1.85
503508--503554	24	2.0	24	87	8	69	38	21	14	25	1.92
504245--504473	20	11.4	20	87	1	253	19	17	26	36	1.94
505265--505301	2	18.5	2	100	0	74	48	0	0	51	1.00
506973--507131	63	2.5	63	86	0	210	23	32	18	26	1.97
507768--507887	15	8.0	15	97	0	222	51	0	0	48	1.00
507768--507927	30	5.1	30	86	10	223	48	0	1	50	1.12
507768--507927	45	3.4	45	90	6	232	48	0	1	50	1.12
507873--507972	22	4.4	22	67	12	67	39	0	10	51	1.36
507895--507927	14	2.3	14	94	5	57	42	0	0	57	0.98
507768--507927	15	10.3	15	87	9	196	48	0	1	50	1.12
507980--508140	32	5.7	31	72	27	160	34	0	12	52	1.44
508013--508055	22	2.0	22	100	0	86	34	0	13	51	1.42
507981--508158	54	3.3	54	95	0	329	34	0	12	52	1.43
508067--508109	22	2.0	22	100	0	86	39	0	9	51	1.34
507910--508441	188	2.8	187	95	2	960	34	0	12	52	1.41
508089--508238	80	1.9	80	95	2	275	34	0	13	52	1.40
508168--508329	32	5.7	31	72	27	162	35	0	11	52	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508201--508243	22	2.0	22	95	0	77	37	0	11	51	1.39
508173--508346	54	3.2	54	93	4	307	35	0	12	52	1.38
508039--508426	134	2.9	135	86	10	505	34	0	12	52	1.39
508255--508297	22	2.0	22	95	0	77	34	0	11	53	1.37
508300--508347	22	2.4	18	73	23	51	33	0	14	52	1.42
508354--508404	14	3.1	17	70	18	54	33	0	11	54	1.37
508455--508514	31	1.9	31	93	0	102	43	10	6	40	1.64
518400--518476	32	2.4	32	91	0	118	41	11	27	19	1.86
520205--520276	11	6.6	11	68	13	51	45	0	2	51	1.15
520233--520273	21	2.0	20	85	4	55	43	0	2	53	1.13
520216--520285	32	2.2	31	82	7	88	48	1	4	45	1.30
520230--520293	32	2.0	32	84	0	83	48	1	3	46	1.27
526329--526370	11	3.8	11	83	0	57	33	23	11	30	1.91
530587--530655	35	2.0	35	88	0	102	10	30	20	39	1.85
543397--543487	33	2.7	35	89	8	143	29	13	4	52	1.59
543726--543761	10	3.6	10	92	0	63	13	8	16	61	1.56
543938--544066	10	11.5	10	66	21	51	13	10	16	59	1.60
543934--543971	20	1.9	20	94	0	67	21	13	7	57	1.60
543958--544066	24	4.7	23	77	8	112	11	10	17	60	1.58
543976--544042	33	2.0	34	88	8	102	7	10	22	59	1.55
560434--560470	11	3.4	11	92	0	65	16	2	27	54	1.56
562230--562339	32	3.5	31	78	7	82	39	7	5	48	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
563695--566654	4	753.2	4	93	4	5112	49	25	0	24	1.53
567469--567650	43	4.3	42	84	5	222	27	21	23	27	1.99
567469--567650	85	2.1	86	84	3	233	27	21	23	27	1.99
567488--567675	85	2.2	86	82	3	229	25	20	23	30	1.98
570569--570602	18	1.9	18	88	5	52	64	8	14	11	1.49
572188--572551	42	8.8	42	84	4	445	32	18	21	27	1.97
572188--572551	83	4.4	83	84	6	418	32	18	21	27	1.97
572188--572551	125	2.9	124	89	2	525	32	18	21	27	1.97
573542--573594	20	2.7	19	74	8	61	33	32	18	15	1.92
573582--573715	20	6.6	20	70	9	101	39	23	17	19	1.92
573643--573730	41	2.1	41	93	0	149	37	22	18	21	1.94
573643--573730	21	4.3	21	75	15	85	37	22	18	21	1.94
573726--573790	19	3.7	19	70	19	68	12	23	20	44	1.84
573734--573823	33	2.7	33	92	1	144	12	23	21	43	1.86
573788--573843	20	2.8	20	86	0	85	16	23	19	41	1.90
575541--575920	94	4.1	94	92	1	593	22	11	17	48	1.80
576074--576161	14	5.6	14	71	23	68	9	23	21	45	1.80
576053--576179	33	3.8	33	98	0	245	10	23	21	44	1.82
576050--576179	19	7.6	19	69	23	119	10	23	21	44	1.82
576656--576722	21	3.2	21	66	6	55	23	35	19	20	1.95
576604--576722	42	2.8	42	79	2	114	22	36	17	23	1.95
578070--578104	14	2.5	14	95	0	61	34	0	22	42	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578282--578382	20	5.5	19	73	15	86	16	20	19	42	1.89
578341--578368	14	2.0	14	100	0	56	14	21	21	42	1.88
578264--578415	33	4.4	33	77	12	153	15	21	19	44	1.87
580939--581004	24	2.8	24	97	0	123	36	19	21	22	1.95
581866--581934	20	3.5	20	82	7	61	23	21	21	33	1.97
581862--581951	39	2.3	40	84	5	112	21	21	23	34	1.97
581886--582031	20	7.3	20	78	5	143	19	17	22	40	1.91
581862--582031	40	4.3	39	80	9	139	20	18	21	38	1.93
582018--582071	20	2.7	19	75	8	63	16	18	31	33	1.93
582367--582484	21	5.7	21	79	6	116	23	22	16	38	1.93
582371--582488	62	1.9	60	83	6	148	25	20	16	38	1.92
582393--582470	41	1.9	41	94	5	140	24	19	15	41	1.90
582393--582449	20	2.8	20	81	2	69	24	17	15	42	1.88
582396--582483	41	2.1	41	89	4	133	25	20	14	39	1.90
583240--583305	24	2.8	24	97	0	123	22	21	19	36	1.95
583235--583317	24	3.5	24	89	0	112	25	19	19	36	1.95
583508--583543	14	2.5	14	90	4	54	58	22	13	5	1.56
585491--585545	19	2.8	19	83	2	65	38	21	21	18	1.94
585452--585545	20	4.7	20	71	13	68	35	23	20	21	1.96
585518--585611	33	2.8	33	91	0	152	43	17	24	14	1.86
585640--585686	19	2.5	19	96	0	85	12	21	21	44	1.85
585651--585694	19	2.3	19	88	0	61	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)
585793--585843	14	3.6	14	94	0	84	43	21	0	35	1.53
587737--587816	14	4.8	18	69	25	68	48	23	20	7	1.74
587737--587826	33	2.7	33	85	0	126	46	24	18	10	1.80
587853--587914	20	3.2	20	83	4	90	11	22	17	48	1.79
588007--588476	94	5.1	94	94	2	772	47	18	12	21	1.82
590163--590250	33	2.5	33	80	10	95	48	18	20	12	1.80
590163--590255	19	5.1	19	69	13	79	47	18	21	12	1.82
590251--590313	14	4.5	14	91	0	99	14	20	20	44	1.86
590292--590366	33	2.2	34	88	2	116	10	22	21	45	1.82
590768--590830	27	2.3	27	97	0	117	17	1	33	47	1.57

Tables:   1   2   3   4   5   6   7