genome.fa.s8888.2.7.7.80.10.50.1000.2.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: VEPZ01008888.1 Hibiscus syriacus cultivar Beakdansim tig00112153_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1025554

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 488 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)
271943--272061	42	2.8	42	83	2	141	21	32	20	25	1.97
273990--274030	12	3.4	12	86	0	55	17	2	24	56	1.53
273997--274031	6	5.8	6	86	0	52	17	2	20	60	1.49
273990--274038	24	2.0	24	84	0	62	14	6	20	59	1.56
276287--276340	24	2.2	24	93	0	90	40	20	18	20	1.91
276287--276354	24	2.8	24	84	0	64	38	20	17	23	1.93
277241--277287	18	2.6	18	82	3	58	31	14	23	29	1.95
277261--277339	19	4.1	19	77	9	72	30	12	22	34	1.92
277261--277376	60	2.0	57	80	11	128	27	14	23	34	1.94
277319--277469	20	7.6	20	72	11	105	21	15	25	37	1.92
278019--278043	5	5.0	5	100	0	50	60	0	0	40	0.97
278126--278165	2	20.5	2	94	5	73	50	0	0	50	1.00
278861--278913	26	2.0	26	100	0	106	43	7	15	33	1.74
287547--287806	125	2.1	125	85	7	341	24	18	12	45	1.83
292796--292849	28	1.9	28	88	0	81	40	33	3	22	1.71
294126--294340	42	5.0	43	82	2	229	30	14	26	27	1.95
296444--296658	42	5.0	43	90	2	337	27	15	30	26	1.96
296444--296666	86	2.6	85	86	3	263	29	15	30	25	1.96
296700--296806	42	2.6	42	79	4	119	26	21	21	30	1.98
296959--297033	20	3.7	20	71	16	64	21	22	24	32	1.98
296954--297067	42	2.7	42	87	4	160	25	21	23	29	1.99
296981--297053	20	3.5	21	74	9	69	24	19	21	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
296955--297083	42	3.1	41	82	5	107	25	22	24	27	2.00
297253--297340	36	2.4	36	81	10	117	27	15	17	39	1.90
297850--297889	21	1.9	21	89	0	62	37	15	32	15	1.88
297766--297979	109	2.0	109	89	1	331	29	16	23	30	1.96
297871--298153	132	2.1	132	85	1	406	30	20	18	30	1.97
299486--299541	25	2.3	24	84	3	76	25	14	1	58	1.45
299597--299633	14	2.5	15	87	12	51	16	2	2	78	0.98
299624--299693	15	4.6	15	74	13	54	20	11	7	61	1.53
307586--307675	33	2.7	33	80	0	90	15	16	25	42	1.88
307663--307734	32	2.2	32	78	9	76	11	13	25	50	1.75
308086--308149	19	3.3	19	72	19	60	50	0	0	50	1.00
308091--308155	21	3.1	21	74	12	71	50	0	0	49	1.00
308129--308199	14	4.9	15	67	10	58	52	0	2	45	1.15
308093--308189	42	2.4	40	83	8	115	53	0	1	45	1.07
309777--309819	19	2.3	19	95	0	77	39	25	9	25	1.85
312439--312478	20	2.0	21	85	14	57	42	5	7	45	1.54
312694--312854	65	2.5	64	85	1	214	31	25	15	27	1.96
314890--314945	20	2.7	20	81	13	60	39	12	5	42	1.65
319462--319505	21	2.1	21	86	0	61	9	36	15	38	1.80
320285--320324	20	2.0	21	85	14	57	42	5	7	45	1.54
320540--320700	65	2.5	64	86	1	223	30	25	16	27	1.96
325605--325630	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
326971--327118	29	5.1	28	80	4	125	42	16	18	21	1.89
327023--327128	29	3.7	29	80	9	126	44	15	16	23	1.86
343642--343724	2	41.5	2	100	0	166	49	0	0	50	1.00
347891--347963	3	24.3	3	85	0	101	35	2	1	60	1.20
353079--353110	15	2.1	15	94	0	55	25	18	9	46	1.79
360365--360444	31	2.6	31	80	13	94	82	0	17	0	0.67
360366--360450	7	11.7	7	76	14	75	82	0	17	0	0.67
360362--360450	8	11.0	8	77	15	94	82	0	17	0	0.68
361364--361985	83	7.6	82	91	4	985	26	13	22	36	1.92
361364--361970	162	3.7	164	93	3	1016	26	13	22	36	1.92
362903--362965	32	1.9	34	87	6	94	41	12	17	28	1.86
363046--363103	19	3.1	19	67	18	57	44	10	24	20	1.82
362975--363216	111	2.2	111	99	0	475	35	14	19	30	1.92
363170--363231	19	3.3	18	70	17	54	41	12	24	20	1.87
363157--363257	38	2.5	39	90	7	150	44	9	23	21	1.82
363046--363418	154	2.5	147	87	6	529	38	12	20	28	1.89
363323--363382	16	3.5	16	72	24	59	51	8	20	20	1.72
363313--363401	36	2.5	36	94	0	151	49	8	20	21	1.76
363347--363621	118	2.3	115	80	10	290	43	14	17	24	1.86
363775--363841	3	22.3	3	84	0	89	35	2	1	59	1.22
363779--363866	24	3.6	24	83	6	70	40	2	1	55	1.20
368258--368299	21	2.0	21	100	0	84	23	23	0	52	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
368543--368951	190	2.1	190	81	5	495	40	6	8	44	1.62
371651--371691	20	2.0	20	100	0	82	41	14	14	29	1.86
375490--375561	18	4.0	18	72	16	60	62	2	0	34	1.10
376391--376452	23	2.6	25	74	7	65	0	17	6	75	1.00
376390--376428	16	2.7	14	88	11	53	0	12	5	82	0.83
377009--377723	76	9.4	76	95	1	1256	35	21	20	22	1.96
378390--378444	22	2.5	22	84	0	83	38	12	12	36	1.82
378803--378913	53	2.1	54	91	1	179	22	20	17	39	1.92
381033--381258	114	2.0	114	89	0	344	30	20	15	33	1.93
383413--383441	12	2.4	12	100	0	58	0	13	0	86	0.58
388871--388942	18	4.0	18	72	16	60	62	2	0	34	1.10
389775--389833	24	2.6	22	82	12	66	0	18	6	74	1.03
390200--390275	39	2.1	39	87	9	115	51	0	1	47	1.09
390214--390255	17	2.5	17	88	3	59	52	0	0	47	1.00
392171--392293	60	2.0	60	87	3	176	34	16	13	34	1.88
394922--394977	22	2.6	22	78	13	62	66	3	0	30	1.09
394945--394983	20	2.0	20	84	0	51	64	5	0	30	1.15
396144--396176	15	2.2	15	100	0	66	27	6	48	18	1.71
399263--399604	38	9.0	38	87	2	447	24	19	17	37	1.94
399569--399877	45	6.9	45	81	4	392	21	16	20	41	1.90
399568--399877	135	2.3	134	94	2	541	21	16	20	41	1.90
399569--399916	135	2.6	134	87	5	366	23	16	20	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399946--399986	21	2.0	21	95	0	73	36	9	12	41	1.76
399967--400417	133	3.4	133	84	6	583	28	19	19	32	1.96
400573--400616	6	7.3	6	90	7	54	27	0	0	72	0.85
400551--400616	25	2.7	24	80	15	64	28	1	0	69	0.97
400574--400611	19	2.0	20	89	5	60	28	0	0	71	0.87
400547--400618	27	2.6	28	76	20	71	27	1	0	70	0.95
404022--404053	16	1.9	17	93	6	57	43	0	3	53	1.16
405498--405726	39	5.8	39	89	3	345	32	18	15	34	1.92
405854--406057	92	2.2	92	82	7	229	29	24	18	27	1.98
409511--409557	17	2.6	17	83	12	51	68	0	25	6	1.13
409517--409557	19	2.2	19	86	8	57	70	0	21	7	1.11
409500--409629	41	3.1	42	73	7	115	72	2	21	3	1.12
409528--409620	12	7.1	13	68	19	59	72	2	21	4	1.13
409516--409623	18	6.0	18	74	18	66	71	1	22	4	1.14
409594--409630	11	3.3	11	92	3	56	81	0	18	0	0.70
409593--409630	17	2.2	18	95	4	69	81	0	18	0	0.69
409593--409630	6	6.5	6	87	6	60	81	0	18	0	0.69
411909--411942	14	2.4	15	90	9	54	52	0	0	47	1.00
413665--413690	2	13.0	2	100	0	52	50	0	0	50	1.00
413815--414476	244	2.7	244	88	2	915	26	21	15	37	1.92
414307--414513	111	1.9	112	89	5	330	23	20	14	40	1.90
415348--415406	11	5.2	11	83	6	64	5	11	0	83	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415363--415413	14	3.6	14	81	7	59	3	9	0	86	0.70
426681--426738	22	2.5	23	75	16	57	55	3	1	39	1.27
426909--426961	21	2.5	21	81	0	61	22	26	16	33	1.96
426954--427042	20	4.4	20	82	2	115	38	19	21	21	1.94
426954--427042	41	2.2	40	85	2	115	38	19	21	21	1.94
427652--427709	20	2.9	20	84	0	62	18	17	20	43	1.89
427681--427720	20	2.0	20	100	0	80	10	15	20	55	1.68
429602--429651	20	2.5	20	93	0	82	36	22	18	24	1.95
429698--429776	20	4.0	20	90	6	124	21	18	21	37	1.94
429758--429848	33	2.7	34	77	3	103	14	19	21	43	1.87

Tables:   1   2   3   4   5