genome.fa.s8759.2.7.7.80.10.50.1000.2.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: VEPZ01008759.1 Hibiscus syriacus cultivar Beakdansim tig00111851_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  899239

Tables:   1   2   3   4   

This is table  2  of  4  ( 405 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)
346462--346500	18	2.1	18	90	4	60	41	7	7	43	1.62
349178--349206	2	14.5	2	100	0	58	51	0	0	48	1.00
352081--352105	2	12.5	2	100	0	50	52	0	0	48	1.00
354156--354230	29	2.6	29	84	0	96	18	40	26	14	1.90
354157--354244	29	3.0	29	84	0	95	20	37	30	11	1.88
354483--354508	10	2.6	10	100	0	52	11	19	50	19	1.77
354528--354614	29	3.0	29	84	0	120	14	29	39	16	1.88
357234--357366	60	2.2	60	80	9	146	34	15	17	32	1.91
357441--357476	17	2.2	17	90	5	56	41	0	5	52	1.24
357441--357478	16	2.4	16	86	8	51	42	0	5	52	1.24
357886--357934	20	2.5	20	96	0	89	61	2	0	36	1.08
360834--360874	21	2.0	21	90	0	64	51	4	12	31	1.60
363703--363801	43	2.3	44	94	3	175	38	17	4	40	1.68
364141--364181	22	2.0	21	85	9	57	48	2	19	29	1.61
365893--365924	15	2.1	15	100	0	64	21	0	46	31	1.52
367285--367410	62	2.0	63	96	3	236	50	11	15	22	1.75
368705--368802	10	10.3	9	76	14	72	16	27	26	29	1.97
368705--368796	28	3.2	29	83	11	109	16	26	27	30	1.97
368705--368777	38	1.9	36	86	13	103	16	27	26	30	1.97
368704--368796	19	4.9	18	77	13	80	17	25	26	30	1.97
368804--368857	12	4.3	12	79	13	56	18	40	25	14	1.89
368833--368863	7	4.4	7	100	0	62	16	29	29	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
369732--369855	63	2.0	63	82	6	153	16	26	29	27	1.97
369779--369855	31	2.4	32	73	14	79	19	27	27	25	1.99
376051--376133	9	8.8	9	73	10	58	18	25	27	28	1.98
376052--376133	19	4.3	18	76	14	76	17	25	28	29	1.97
376052--376114	29	2.2	28	88	8	92	17	26	26	28	1.98
376136--376193	5	10.8	5	78	14	62	18	51	22	6	1.70
376136--376200	22	3.0	22	100	0	130	18	49	23	9	1.76
378015--378070	14	4.3	14	76	17	66	10	12	23	53	1.69
378022--378091	24	2.9	24	87	4	97	12	10	18	58	1.62
378801--378875	10	7.7	10	69	21	61	9	12	21	57	1.62
378807--378871	16	4.1	16	95	0	121	7	12	23	56	1.61
378941--378973	16	2.1	16	100	0	66	6	12	24	57	1.57
379411--379458	25	2.0	24	84	12	62	54	0	2	43	1.12
379539--379586	25	2.0	24	84	12	62	54	0	2	43	1.12
379381--379638	128	2.0	128	98	0	498	42	6	11	39	1.68
381242--381329	4	23.5	4	68	13	53	50	1	0	48	1.08
381242--381329	6	15.7	6	75	13	53	50	1	0	48	1.08
381242--381329	42	2.1	42	89	0	131	50	1	0	48	1.08
381553--381605	26	2.0	26	85	7	72	35	3	32	28	1.75
381704--381773	36	1.9	36	82	8	88	37	14	2	45	1.59
381800--381831	10	3.2	10	95	0	55	56	0	0	43	0.99
383631--383672	21	2.0	20	86	4	57	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384610--384728	60	2.0	60	83	6	152	41	6	11	40	1.68
388743--388773	2	16.0	2	93	6	55	48	0	0	51	1.00
390521--390917	189	2.1	182	96	3	731	25	11	23	39	1.88
393333--393399	35	1.9	35	100	0	134	29	10	26	32	1.90
393413--393445	16	2.1	16	94	0	57	15	30	30	24	1.95
394662--394688	14	1.9	14	100	0	54	77	0	7	14	0.97
394909--394978	20	3.5	20	92	2	104	41	15	22	20	1.90
394977--395020	20	2.2	20	87	0	70	34	22	15	27	1.95
395205--395244	21	2.0	21	90	5	64	20	45	17	17	1.86
395506--395574	20	3.5	20	91	0	102	18	18	26	36	1.94
395506--395584	20	4.0	20	91	0	86	17	18	22	40	1.91
399274--399333	28	2.1	28	84	0	75	40	8	8	43	1.65
402791--402823	16	2.1	16	100	0	66	57	24	12	6	1.57
402888--402961	10	7.6	10	69	22	59	58	21	10	9	1.60
402892--402956	16	4.1	16	95	0	121	56	23	12	7	1.61
402895--402963	32	2.2	32	91	0	111	57	21	10	10	1.60
403705--403737	14	2.4	14	94	0	57	54	27	12	6	1.60
410326--410375	21	2.4	22	80	16	61	38	20	14	28	1.91
410833--410894	32	1.9	32	87	6	90	40	3	8	48	1.49
411366--411442	37	2.1	38	83	9	97	54	1	2	41	1.22
411985--412037	26	2.1	26	96	3	99	66	0	3	30	1.10
425762--426074	158	2.0	154	96	3	574	25	18	14	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444898--444927	15	2.0	15	100	0	60	0	26	33	40	1.57
447765--447866	32	3.1	34	72	16	106	41	0	3	54	1.19
448355--448414	31	1.9	31	93	0	102	45	8	6	40	1.61
449718--449773	24	2.3	24	82	8	69	50	0	0	50	1.00
450991--451219	117	2.0	115	82	5	284	37	7	8	45	1.64
451069--451117	21	2.3	21	75	10	55	34	2	0	63	1.06
452451--452504	30	1.9	28	82	14	67	27	11	11	50	1.72
465210--465296	23	3.7	23	75	14	79	27	25	26	20	1.99
471451--471571	65	1.9	64	81	11	149	31	29	20	18	1.96
471622--471708	16	5.4	16	90	0	120	19	27	14	37	1.91
471959--472005	14	3.7	14	71	26	50	44	0	4	51	1.21
471958--472007	23	2.1	24	96	3	93	48	0	4	48	1.20
475113--475340	102	2.3	99	89	2	348	51	19	8	20	1.73
475512--475614	33	3.1	32	88	8	136	59	13	12	14	1.62
475638--475686	22	2.2	22	96	0	89	53	4	26	16	1.61
477410--477458	20	2.4	21	83	13	66	28	2	26	42	1.66
477588--477658	18	3.6	18	67	20	52	39	11	7	42	1.68
477572--477681	42	2.6	42	97	0	202	40	12	7	39	1.71
477606--477677	24	3.2	24	64	22	66	40	13	6	38	1.72
477904--478093	77	2.5	75	82	7	179	41	5	4	48	1.47
477989--478024	15	2.4	15	95	0	63	41	2	5	50	1.40
477989--478294	13	22.5	13	68	21	121	42	3	5	48	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
477895--478047	2	78.0	2	65	22	58	44	5	3	46	1.44
477941--478095	77	2.0	77	88	0	229	43	3	4	48	1.41
477989--478099	17	6.1	17	71	19	64	40	3	5	50	1.43
478070--478246	28	6.9	26	70	19	88	42	5	6	45	1.51
478131--478294	18	8.6	18	71	21	95	43	2	4	48	1.37
478088--478268	98	1.9	97	95	1	326	43	4	5	46	1.47
478229--478297	2	36.5	2	72	21	51	43	0	2	53	1.15
478230--478292	29	2.4	25	81	10	72	44	0	3	52	1.17
478233--478294	19	3.3	18	80	14	65	43	0	3	53	1.17
479763--479813	24	2.1	24	88	0	75	43	3	5	47	1.46
483226--483278	21	2.6	20	76	8	54	22	3	0	73	0.99
490223--490289	15	4.5	15	84	0	89	10	14	65	8	1.46
490979--491108	40	3.4	38	83	13	167	19	24	23	33	1.97
496310--496352	16	2.6	16	82	10	52	53	0	0	46	1.00
496876--496906	2	15.5	2	100	0	62	51	0	0	48	1.00
504954--505023	20	3.5	19	76	16	70	32	21	14	31	1.93
505671--505730	10	5.8	10	78	7	57	48	1	1	48	1.21
505662--505729	11	6.5	11	80	8	79	47	1	1	50	1.19
505662--505825	21	7.8	21	73	12	122	45	3	3	46	1.38
505768--505839	11	6.6	11	75	10	60	47	1	0	51	1.09
505781--505845	11	5.7	12	80	12	66	47	3	0	49	1.17
511839--511892	25	2.2	25	89	0	81	24	22	5	48	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512141--512578	217	2.0	220	95	3	796	28	11	22	36	1.90
518465--518522	30	1.9	30	100	0	116	36	6	5	51	1.51
524377--524457	41	2.0	41	87	4	119	50	6	6	37	1.52
525060--525260	101	2.0	101	99	0	393	31	15	13	38	1.87
525247--525311	31	2.1	31	85	5	87	24	9	12	53	1.67
527164--527238	31	2.4	30	86	6	105	49	13	12	25	1.76
527925--527972	25	1.9	25	83	8	62	50	6	2	41	1.39
528012--528041	2	15.0	2	100	0	60	50	0	0	50	1.00
531470--531649	87	2.1	86	90	5	283	48	14	13	23	1.80
531847--531936	20	4.5	20	82	0	108	41	16	18	23	1.90

Tables:   1   2   3   4