genome.fa.s8192.2.7.7.80.10.50.1000.3.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: VEPZ01008192.1 Hibiscus syriacus cultivar Beakdansim tig00110809_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1702141

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1079 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)
310981--311144	59	2.7	60	74	18	142	71	3	7	17	1.22
312545--312676	39	3.4	38	79	12	108	45	4	3	46	1.38
312514--312876	35	9.1	38	72	20	214	45	5	3	45	1.44
312659--312696	2	19.5	2	94	5	69	50	0	0	50	1.00
312620--312734	60	1.9	60	92	3	196	46	2	3	46	1.33
312582--312768	98	1.9	97	91	4	304	45	3	3	46	1.38
312684--312876	72	2.6	73	87	8	286	44	5	4	45	1.48
312682--312876	35	5.4	36	87	7	270	44	5	4	45	1.48
318142--318173	4	8.0	4	92	0	55	25	25	21	28	1.99
319184--319322	15	9.0	15	70	17	72	47	4	4	43	1.42
319195--319295	19	5.9	19	69	19	64	46	2	2	47	1.33
319158--319259	13	8.2	13	69	19	65	49	1	1	47	1.24
319278--319322	13	3.3	13	87	6	63	48	6	6	37	1.56
319158--319297	2	72.0	2	66	23	59	47	2	2	46	1.32
319468--319502	17	2.0	18	88	5	54	45	0	28	25	1.54
319451--319551	19	5.3	18	73	13	78	42	0	29	27	1.56
320005--320056	15	3.4	15	87	12	79	51	7	1	38	1.42
320089--320128	21	1.9	21	84	0	53	52	25	0	22	1.47
320194--320244	21	2.4	21	80	6	59	52	25	0	21	1.47
320045--320263	111	2.0	112	90	0	350	50	16	5	26	1.68
320566--320609	14	3.1	14	86	0	61	47	38	0	13	1.43
321258--321318	17	3.7	17	72	14	56	45	3	4	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
321475--321548	7	10.7	7	71	18	57	50	27	0	22	1.50
321475--321548	14	5.4	14	72	13	64	50	27	0	22	1.50
321487--321555	21	3.2	21	77	4	66	52	24	0	23	1.48
321579--321636	7	8.3	7	78	0	53	48	29	0	22	1.51
321579--321630	21	2.5	21	93	0	86	50	28	0	21	1.49
321857--322145	148	2.0	148	99	0	569	40	9	5	45	1.59
322146--322211	15	4.3	15	80	7	71	50	6	3	40	1.43
322162--322203	21	2.0	21	95	0	75	50	7	0	42	1.30
322143--322194	2	25.5	2	79	11	52	50	5	1	42	1.37
322276--322344	7	9.9	7	76	6	52	52	26	0	21	1.47
322270--322342	14	5.2	14	81	3	58	53	23	0	23	1.46
322276--322348	21	3.5	21	76	10	78	52	26	0	21	1.48
322276--322328	14	3.8	14	87	0	61	52	24	0	22	1.47
322819--322857	16	2.4	16	95	0	69	38	15	28	17	1.91
322882--322958	31	2.4	32	78	8	86	18	19	25	36	1.94
328322--328411	47	1.9	47	90	4	146	37	16	15	30	1.90
332334--332386	21	2.5	21	81	0	70	20	22	18	37	1.94
332376--332549	20	8.6	20	91	1	285	40	19	19	20	1.92
332775--332891	20	6.5	20	70	25	73	41	22	18	17	1.90
332778--332871	33	2.8	34	83	3	127	44	22	19	13	1.85
333423--333527	21	5.0	21	72	8	88	20	37	20	22	1.95
333421--333530	42	2.6	42	76	11	118	20	37	20	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
334912--334947	14	2.6	14	90	0	54	30	0	22	47	1.52
335124--335217	20	4.7	20	92	2	154	18	22	25	34	1.96
338662--338708	20	2.3	20	92	0	76	21	19	27	31	1.97
338695--338788	20	4.7	20	78	2	107	21	20	20	38	1.94
338683--338829	61	2.4	60	78	7	179	25	19	23	32	1.97
343114--343170	20	2.8	20	97	0	105	26	31	22	19	1.98
344701--344768	25	2.8	24	85	14	86	26	26	20	26	1.99
344709--344784	25	3.0	25	82	3	73	30	25	19	25	1.98
348526--348612	31	2.9	30	80	12	108	39	12	2	45	1.55
352876--352917	2	21.5	2	95	4	77	50	0	0	50	1.00
354133--354175	3	14.3	3	95	0	59	58	0	0	41	0.98
354124--354166	21	2.0	21	91	8	70	48	0	0	51	1.00
354124--354169	24	1.9	24	90	0	74	50	0	0	50	1.00
354931--354978	22	2.0	24	84	11	64	22	0	10	66	1.22
356426--356455	15	1.9	16	93	6	53	70	3	0	26	1.03
356661--356703	17	2.6	17	80	20	56	58	0	2	39	1.11
356725--356758	18	1.9	17	88	5	50	32	5	2	58	1.37
357423--357473	6	8.5	6	93	0	75	27	0	21	50	1.48
357423--357473	18	2.8	18	93	0	84	27	0	21	50	1.48
358317--358458	69	2.0	70	98	1	277	34	26	4	33	1.78
362322--362354	15	2.3	15	89	5	50	66	12	0	21	1.23
362467--362501	17	2.1	17	94	5	63	51	11	0	37	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
363660--363968	53	5.9	53	89	2	389	23	28	19	28	1.98
364362--364588	42	5.5	42	72	18	192	31	24	18	25	1.98
364325--364552	120	1.9	120	93	1	395	30	23	20	25	1.98
364779--364862	42	2.0	41	81	6	98	30	23	20	25	1.98
370205--370249	21	2.1	21	87	0	63	31	28	24	15	1.96
370833--370867	18	1.9	18	88	11	54	54	5	17	22	1.64
371754--372068	149	2.1	149	92	3	528	26	18	21	33	1.96
372036--372080	23	2.0	23	86	0	63	24	26	24	24	2.00
375219--375263	21	2.1	21	91	0	72	33	28	22	15	1.95
375843--375877	18	1.9	18	88	11	54	54	5	17	22	1.64
376760--377069	148	2.1	146	93	4	527	26	18	21	33	1.96
377037--377081	23	2.0	23	90	0	72	22	26	26	24	2.00
392395--392435	17	2.4	17	100	0	82	4	68	4	21	1.28
392390--392436	17	2.4	21	73	26	66	4	68	4	23	1.26
393379--393434	25	2.2	25	100	0	112	10	3	69	16	1.30
407053--407134	42	2.0	42	87	0	119	24	18	21	35	1.96
407555--407645	41	2.2	41	78	3	103	27	20	21	29	1.98
407797--407879	42	2.0	42	88	4	123	24	21	20	33	1.97
414793--414861	3	24.0	3	89	8	108	34	0	1	63	1.03
414793--414861	14	4.9	14	89	8	104	34	0	1	63	1.03
415101--415133	16	2.0	17	94	5	59	27	24	18	30	1.98
420031--420172	40	3.5	40	100	0	284	40	8	14	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420180--420241	14	4.6	14	80	8	65	11	17	19	51	1.75
422153--422200	24	2.0	24	95	0	87	31	20	27	20	1.98
431444--431494	21	2.4	21	90	0	84	17	25	23	33	1.96
440864--440971	54	2.0	54	98	0	207	42	15	11	30	1.82
442437--442805	20	18.5	20	84	5	451	34	26	18	20	1.96
443488--443534	24	2.0	24	87	8	69	25	14	21	38	1.92
443709--443733	12	2.1	12	100	0	50	72	0	28	0	0.86
446017--446309	19	16.4	19	83	14	392	47	18	20	14	1.83
446045--446331	52	5.4	55	90	8	356	46	17	21	14	1.83
446017--446331	128	2.6	128	88	7	462	46	18	20	14	1.83
446338--446439	19	5.6	19	85	12	151	14	23	17	44	1.86
446546--446582	14	2.6	14	91	0	65	45	21	0	32	1.52
448540--448596	14	3.7	14	77	20	60	45	22	21	10	1.82
448521--448613	33	2.8	33	95	0	168	47	21	20	10	1.80
448484--448618	19	7.6	19	76	16	128	45	23	19	11	1.82
448614--448742	19	7.3	19	75	17	125	8	17	28	45	1.77
448614--448705	33	2.8	33	93	3	150	7	18	28	45	1.76
448786--449257	93	5.1	93	98	1	912	46	18	12	22	1.83
448786--449257	185	2.6	185	99	0	926	46	18	12	22	1.83
450964--451053	14	5.7	14	74	23	81	42	23	25	8	1.83
450956--451070	33	3.5	33	95	0	212	45	20	24	9	1.81
450963--451075	19	6.8	18	72	23	88	43	22	24	9	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451087--451141	14	3.6	14	73	21	56	9	25	23	41	1.83
451071--451141	33	2.2	33	94	0	124	8	22	25	43	1.81
451082--451163	33	2.5	33	89	2	119	9	25	21	42	1.84
451094--451182	20	4.8	20	72	19	75	12	24	19	43	1.85
451262--451332	33	2.2	33	92	0	115	47	18	22	11	1.80
451514--451568	22	2.5	22	81	0	74	20	16	40	23	1.91
451714--451906	20	9.6	20	82	5	219	19	19	25	35	1.95
451714--451906	60	3.2	60	83	0	251	19	19	25	35	1.95
451962--452013	20	2.6	20	96	0	95	21	13	26	38	1.90
461105--461165	21	3.2	21	65	26	62	47	16	4	31	1.68

Tables:   1   2   3   4   5   6   7   8   9