genome.fa.s9636.2.7.7.80.10.50.1000.3.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: VEPZ01009636.1 Hibiscus syriacus cultivar Beakdansim tig00117040_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  700957

Tables:   1   2   3   4   

This is table  3  of  4  ( 443 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)
417375--417482	19	5.8	20	72	17	97	44	19	24	12	1.84
417433--417489	14	3.7	14	75	20	60	43	22	24	8	1.81
417387--417505	33	3.4	33	90	6	166	45	21	22	10	1.82
417523--417612	14	5.7	14	72	23	72	8	24	23	43	1.82
417506--417620	33	3.5	33	96	0	212	9	22	20	46	1.79
417501--417598	19	5.7	19	69	22	81	10	22	22	44	1.82
419319--419694	93	4.1	93	98	0	727	22	12	18	46	1.83
419742--419870	19	7.3	19	75	17	125	45	28	17	8	1.77
419778--419870	33	2.8	32	91	4	150	46	27	18	7	1.76
419742--419870	52	2.5	52	74	14	140	45	28	17	8	1.77
419866--420000	19	7.6	19	75	16	128	11	19	23	45	1.82
419888--419944	14	3.7	14	77	20	60	10	21	22	45	1.82
419871--419963	33	2.8	33	95	0	168	10	20	21	47	1.80
421925--421960	14	2.6	14	95	0	63	33	0	22	44	1.53
422067--422116	20	2.5	20	96	3	93	44	18	22	16	1.87
422123--422418	33	8.5	33	73	16	192	13	21	18	46	1.83
422145--422418	19	15.4	19	81	15	354	13	21	18	46	1.83
422123--422390	52	5.0	52	93	4	464	14	22	17	46	1.83
422145--422418	109	2.6	102	81	13	163	13	21	18	46	1.83
424700--424724	12	2.1	12	100	0	50	0	28	0	72	0.86
424899--424945	24	2.0	24	87	8	69	38	21	14	25	1.92
425628--425837	20	10.5	20	85	2	215	20	17	25	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425804--425901	20	4.8	20	77	3	79	21	18	23	36	1.95
425804--425901	41	2.4	41	77	6	110	21	18	23	36	1.95
426391--426432	18	2.6	16	81	11	50	23	4	2	69	1.20
427565--427591	2	13.5	2	100	0	54	51	0	0	48	1.00
427591--427630	2	20.0	2	100	0	80	50	0	50	0	1.00
428424--428465	3	13.7	3	95	5	75	33	0	0	66	0.92
428800--428845	23	2.0	23	95	4	85	26	4	4	65	1.30
428803--428854	23	2.3	23	86	6	70	32	3	5	57	1.40
429398--429433	2	18.0	2	100	0	72	50	0	0	50	1.00
435969--436129	81	2.0	81	86	2	225	17	29	20	32	1.95
436223--436375	55	2.8	55	79	2	146	28	23	21	26	1.99
436341--436403	27	2.3	27	100	0	126	17	33	25	23	1.96
436230--436494	142	1.9	137	86	5	379	27	24	21	26	1.99
437909--437964	22	2.4	24	80	14	64	30	0	3	66	1.09
442044--442085	16	2.6	16	84	0	57	40	7	21	30	1.80
443526--443570	19	2.4	19	84	0	63	68	0	22	8	1.16
448677--448836	81	2.0	81	86	2	223	17	28	20	33	1.95
448931--449170	55	4.4	55	77	4	241	28	23	20	26	1.99
448958--449170	110	1.9	110	92	0	354	29	23	20	26	1.99
450571--450630	24	2.6	23	80	15	70	31	0	3	65	1.09
454703--454744	16	2.6	16	84	0	57	40	7	21	30	1.80
456185--456229	19	2.4	19	84	0	63	68	0	22	8	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458581--458925	38	9.2	36	73	15	229	43	4	6	45	1.52
458600--458790	34	5.3	33	77	15	141	45	4	5	43	1.48
458760--458784	11	2.3	11	100	0	50	40	8	8	44	1.63
460286--460324	17	2.3	17	86	0	51	12	0	5	82	0.83
461835--461897	23	2.6	23	82	10	72	26	17	17	38	1.92
462254--462679	181	2.4	181	89	3	671	34	11	18	36	1.87
463710--463736	14	1.9	14	100	0	54	29	14	11	44	1.80
468401--468547	74	2.0	74	94	0	258	38	9	14	38	1.78
469884--469926	18	2.2	20	84	8	54	20	9	25	44	1.81
472148--472209	29	2.2	30	83	11	78	20	12	0	66	1.25
473112--473444	130	2.5	131	86	1	445	31	10	17	41	1.82
477915--477979	2	32.5	2	79	11	71	41	1	3	53	1.25
478012--478076	23	2.7	25	76	13	73	26	7	1	64	1.29
478097--478152	19	2.8	20	78	13	62	14	14	0	71	1.15
481782--481826	18	2.5	18	82	7	56	35	0	2	62	1.08
487368--487429	31	2.2	28	78	16	65	30	27	22	19	1.98
498196--498253	29	2.0	30	83	10	75	48	17	18	15	1.82
502461--502507	17	2.8	17	93	0	76	36	12	14	36	1.85
503552--503633	31	2.6	31	82	5	94	12	13	34	40	1.82
503834--503914	33	2.4	33	89	2	117	12	9	34	43	1.76
503615--504145	290	1.8	288	86	4	764	26	11	20	40	1.87
504441--504487	18	2.7	18	90	3	69	27	27	8	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505924--506018	20	4.7	20	74	10	68	38	23	17	20	1.93
505986--506156	20	8.6	20	84	5	107	35	26	18	20	1.95
505843--506018	61	2.9	61	75	6	171	38	25	17	18	1.92
505966--506175	60	3.5	58	80	7	208	37	25	17	20	1.94
506020--506175	20	7.8	20	87	4	174	35	25	17	21	1.95
505986--506175	40	4.8	40	86	5	208	36	25	17	20	1.94
506857--506903	24	2.0	24	87	8	69	25	14	21	38	1.92
507078--507102	12	2.1	12	100	0	50	72	0	28	0	0.86
510274--510330	14	3.7	14	77	20	60	45	22	21	10	1.82
510255--510347	33	2.8	33	95	0	168	47	21	20	10	1.80
510218--510352	19	7.6	19	76	16	128	45	23	19	11	1.82
510348--510476	19	7.3	18	72	17	94	10	17	25	46	1.79
510364--510420	14	3.7	14	77	20	60	10	21	22	45	1.82
510348--510439	33	2.8	33	91	0	148	9	19	23	46	1.80
510524--510806	93	3.1	93	98	0	541	46	18	12	22	1.83
512507--512568	20	3.2	20	79	4	81	43	19	24	12	1.86
512552--512608	14	3.7	14	75	20	60	43	22	24	8	1.81
512505--512625	33	3.5	33	89	6	170	45	20	23	10	1.82
512505--512630	19	7.1	19	71	18	92	44	20	23	11	1.83
512642--512698	14	3.7	14	75	20	60	8	24	22	43	1.81
512656--512744	19	4.9	19	72	15	80	11	23	21	43	1.84
512626--512744	33	3.4	33	88	6	157	10	22	22	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512836--512906	33	2.2	33	94	0	124	47	16	23	11	1.79
513088--513142	22	2.5	22	81	0	74	20	16	40	23	1.91
513289--513482	20	9.6	20	79	5	203	19	20	24	35	1.95
513291--513462	60	2.8	60	84	0	236	20	19	25	34	1.96
513288--513603	60	5.2	60	77	8	232	20	18	25	36	1.95
513449--513546	20	4.8	20	77	3	79	21	18	23	36	1.95
513449--513605	61	2.6	60	80	7	176	19	17	25	38	1.93
513449--513605	41	3.9	41	70	14	110	19	17	25	38	1.93
517515--517566	20	2.6	20	100	0	104	34	19	15	30	1.93
519030--519085	3	19.3	3	81	7	53	60	0	30	8	1.27
519013--519081	32	2.2	32	94	0	120	59	0	27	13	1.34
521187--521229	21	2.0	22	95	4	79	41	9	16	32	1.80
522202--522245	15	2.9	15	82	0	61	47	6	15	29	1.72
522397--522501	49	2.1	50	79	10	119	46	0	1	50	1.18
522452--522621	89	1.9	87	81	11	202	46	0	5	48	1.25
522630--522681	20	2.6	20	77	16	54	50	1	0	48	1.12
522638--522800	29	5.7	27	70	18	82	48	1	0	49	1.13
522637--522805	59	2.9	60	75	17	167	48	1	0	49	1.13
522726--522779	14	3.4	16	72	20	51	48	0	1	50	1.11
522709--522813	54	2.0	53	83	12	135	49	0	0	48	1.14
522758--522812	20	2.7	21	75	11	51	54	0	0	45	0.99
522994--523109	42	2.8	42	90	2	171	50	18	12	18	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524455--524481	10	2.7	10	100	0	54	59	18	11	11	1.60
525101--525142	14	3.0	14	89	0	57	52	21	16	9	1.72
526085--526134	25	2.0	25	96	0	91	26	24	26	24	2.00
528418--528493	36	2.1	36	85	7	100	47	1	3	47	1.29
528633--528676	20	2.3	19	85	11	63	20	25	9	45	1.80
528639--528676	20	1.9	20	94	0	67	21	23	10	44	1.83
530145--530185	16	2.6	16	88	3	57	36	12	21	29	1.90
536422--536450	2	14.5	2	100	0	58	48	0	0	51	1.00
537334--537390	23	2.4	24	85	2	71	12	12	19	56	1.67
537381--537430	14	3.6	14	74	15	59	14	18	16	52	1.76

Tables:   1   2   3   4