genome.fa.s8078.2.7.7.80.10.50.1000.3.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: VEPZ01008078.1 Hibiscus syriacus cultivar Beakdansim tig00110580_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1434613

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 813 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)
431450--431506	30	1.9	30	85	0	78	59	8	10	21	1.57
433676--433780	37	2.8	37	80	0	120	41	15	13	29	1.85
434134--434176	18	2.5	17	85	7	61	25	4	2	67	1.22
434421--434489	21	3.4	20	75	13	61	26	2	0	71	1.00
438758--439282	183	2.9	183	95	0	944	27	20	21	30	1.98
440426--440529	36	2.9	34	72	14	102	28	16	8	46	1.76
440426--440587	72	2.2	75	83	8	199	27	18	12	41	1.86
440442--440555	36	3.2	35	74	2	111	25	15	13	45	1.82
440672--440989	104	3.1	104	91	1	489	31	20	11	36	1.89
440889--440964	36	2.1	36	87	0	107	23	19	14	42	1.88
441164--441467	105	2.9	105	91	0	491	34	26	15	22	1.94
441399--441534	68	2.0	68	97	0	254	32	30	14	22	1.94
441294--441634	173	2.0	169	91	2	556	32	29	15	22	1.95
441468--441756	101	2.8	104	83	7	374	32	27	18	21	1.96
442294--442398	37	2.8	37	82	0	129	41	15	14	28	1.86
442751--442793	17	2.5	18	82	17	56	27	4	2	65	1.25
443857--444135	104	2.7	104	91	1	438	31	20	12	35	1.90
444035--444110	36	2.1	36	87	0	107	23	19	14	42	1.88
444310--444613	105	2.9	105	91	0	491	34	26	15	22	1.94
444545--444680	68	2.0	68	97	0	254	32	30	14	22	1.94
444440--444781	173	2.0	170	92	1	567	32	28	15	22	1.95
444613--444905	102	2.8	103	84	7	378	32	27	18	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
445448--445552	37	2.8	37	82	0	129	41	15	14	28	1.86
445911--445940	15	1.9	16	93	6	53	20	6	3	70	1.25
447819--447870	27	2.0	26	88	3	77	44	0	0	55	0.99
448451--448528	39	2.0	39	100	0	156	23	17	7	51	1.71
453957--453993	2	18.5	2	100	0	74	51	0	0	48	1.00
454867--454899	5	6.6	5	100	0	66	21	0	18	60	1.36
462691--462834	45	3.2	45	88	1	216	42	8	14	34	1.76
465858--465894	18	2.1	18	89	0	56	40	16	16	27	1.89
469773--470058	149	1.9	149	98	0	554	29	13	19	36	1.91
470038--470080	22	2.0	22	85	0	59	23	25	25	25	2.00
470274--470315	15	2.6	16	81	14	50	50	0	14	35	1.43
473522--473682	64	2.5	65	80	9	172	32	19	19	27	1.97
475055--475340	149	1.9	149	97	0	536	29	13	19	36	1.91
478761--478828	3	22.7	3	100	0	136	32	0	0	67	0.91
488648--488685	20	1.9	20	100	0	76	10	31	34	23	1.89
489031--489059	15	2.0	15	93	6	51	58	13	13	13	1.63
512382--512448	18	3.6	18	74	7	71	17	17	31	32	1.94
519224--519297	38	1.9	38	91	0	121	21	20	29	28	1.98
519224--519292	18	3.7	18	86	7	102	18	20	30	30	1.97
526929--526975	20	2.4	20	85	3	60	34	8	21	36	1.84
526946--526989	20	2.2	20	87	0	61	34	9	22	34	1.86
529091--529154	23	2.8	23	77	9	78	59	7	17	15	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531203--531244	3	14.0	3	100	0	84	33	0	0	66	0.92
544373--544412	20	2.0	20	85	0	53	60	2	0	37	1.11
546254--546296	20	2.1	21	86	4	61	30	6	46	16	1.73
549993--550349	103	3.5	103	88	0	518	26	10	21	42	1.85
567246--567303	29	2.1	28	81	15	68	44	13	17	24	1.85
567420--567493	17	4.0	17	76	19	76	32	12	12	43	1.79
577021--577060	21	1.9	21	85	10	55	62	0	2	35	1.09
577688--577724	18	2.1	18	100	0	74	45	16	21	16	1.84
577850--577894	23	2.0	23	81	0	54	62	2	2	33	1.20
578470--578520	26	2.0	25	96	3	93	23	0	15	60	1.35
579281--579501	39	5.7	39	88	6	285	47	1	5	45	1.35
579283--579501	37	5.7	38	89	5	284	47	1	5	45	1.35
579283--579501	76	2.9	74	87	7	296	47	1	5	45	1.35
579277--579525	37	6.5	40	86	7	209	46	1	5	46	1.32
579274--579525	76	3.3	75	79	8	269	46	1	5	46	1.32
585240--585278	20	2.0	20	84	0	51	20	7	23	48	1.75
585435--585516	20	4.0	20	73	9	65	15	21	32	29	1.95
589312--589351	21	1.9	21	85	10	55	35	10	2	52	1.48
592402--592496	31	3.1	31	80	3	111	34	21	16	27	1.95
592630--592665	17	2.0	19	89	10	58	38	11	5	44	1.63
593149--593317	64	2.6	65	84	8	191	29	17	20	32	1.95
596584--596678	31	3.1	31	80	3	111	34	21	16	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596812--596847	17	2.0	19	89	10	58	38	11	5	44	1.63
597330--597479	64	2.3	67	82	10	186	29	17	20	32	1.95
598625--598679	18	3.1	18	89	0	92	25	16	32	25	1.96
599430--599484	21	2.7	21	97	2	103	10	10	43	34	1.75
599520--599560	21	2.0	21	90	0	64	21	26	17	34	1.95
599591--599625	18	1.9	18	94	0	61	25	14	37	22	1.92
599925--599980	18	2.8	20	79	10	71	50	10	10	28	1.71
599923--599977	21	2.8	19	79	12	67	54	10	9	25	1.64
601089--601136	19	2.4	21	80	13	57	29	10	6	54	1.59
611507--611555	15	3.3	15	70	30	50	34	0	6	59	1.22
611496--611555	30	2.0	30	100	0	120	40	0	6	53	1.27
611497--611546	15	3.2	16	70	30	54	44	0	6	50	1.26
611503--611580	30	2.7	29	84	7	88	35	1	6	56	1.33
612005--612029	13	1.9	13	100	0	50	52	8	0	40	1.31
614504--614626	63	1.9	64	88	4	187	38	11	5	44	1.64
623997--624053	2	28.5	2	100	0	114	50	0	0	49	1.00
625245--625298	26	2.1	25	86	3	72	44	5	0	50	1.25
625130--625489	196	1.8	195	85	4	501	48	5	10	35	1.59
629378--629411	2	17.0	2	100	0	68	50	0	0	50	1.00
629828--629882	2	27.5	2	100	0	110	50	0	0	49	1.00
630061--630104	21	2.2	20	87	4	61	27	2	0	70	0.99
630060--630120	24	2.5	24	78	10	61	26	3	1	68	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
630497--630530	17	2.0	17	100	0	68	29	29	11	29	1.92
633360--633490	48	2.7	48	83	4	149	19	29	12	38	1.88
637785--637814	15	1.9	16	93	6	53	10	13	10	66	1.44
640380--640427	23	2.1	23	88	0	69	35	12	18	33	1.89
641153--641189	18	2.1	18	89	0	56	51	10	5	32	1.60
641393--641457	23	2.8	23	90	0	94	38	18	7	35	1.80
641815--641886	23	3.1	23	87	2	90	40	19	5	34	1.75
641395--642842	429	3.4	430	98	0	2807	38	13	8	40	1.74
642243--642294	23	2.3	22	90	6	77	44	19	1	34	1.62
642253--642315	23	2.7	23	90	0	90	38	19	6	36	1.77
642460--642526	30	2.2	29	82	10	73	43	0	4	52	1.21
642672--642723	23	2.3	22	90	6	77	44	19	1	34	1.62
642682--642744	23	2.7	23	90	0	90	38	19	6	36	1.77
644996--645070	3	25.0	3	79	0	78	25	34	5	34	1.79
644997--645086	30	3.1	29	80	9	103	23	35	6	34	1.81
645004--645094	42	2.2	42	89	0	137	21	36	7	34	1.82
646557--647980	199	7.1	199	97	0	2659	32	14	15	37	1.88
648066--648104	19	2.1	19	95	0	69	53	10	2	33	1.48
649888--649953	33	2.0	33	84	0	87	24	43	1	30	1.63
652059--652111	24	2.2	24	83	6	63	26	7	13	52	1.66
652256--652302	20	2.4	19	79	10	58	19	17	8	55	1.67
652424--652469	20	2.3	20	89	10	76	17	17	10	54	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
654892--655016	26	4.6	27	72	20	100	48	31	8	12	1.69
654892--654961	13	5.4	13	86	5	97	50	34	7	8	1.61
654892--655016	39	3.1	39	71	23	105	48	31	8	12	1.69
658879--658964	23	3.7	23	73	16	79	30	24	24	20	1.99
659284--659342	25	2.3	25	79	2	64	38	10	13	37	1.79
666013--666087	24	3.2	24	67	24	68	32	21	25	21	1.98
666016--666098	23	3.6	23	73	14	80	28	22	27	20	1.99
666419--666481	25	2.5	25	74	23	69	39	11	12	36	1.79
670112--670150	7	5.4	7	81	6	51	66	0	0	33	0.92
670119--670153	15	2.2	16	90	5	54	68	0	0	31	0.90

Tables:   1   2   3   4   5   6   7