genome.fa.s6678.2.7.7.80.10.50.1000.2.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: VEPZ01006678.1 Hibiscus syriacus cultivar Beakdansim tig00016563_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1086949

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)
173759--173808	23	2.2	23	82	13	59	54	6	2	38	1.37
173759--173809	24	2.2	23	82	10	59	54	5	1	37	1.36
180663--180704	22	1.9	22	85	9	59	52	2	7	38	1.42
190107--190143	14	2.4	16	78	17	51	45	2	0	51	1.15
190584--190611	3	9.3	3	100	0	56	0	32	0	67	0.91
192680--192774	50	1.9	50	82	0	118	34	13	16	34	1.89
193493--193535	21	2.0	21	95	0	77	46	11	0	41	1.40
193658--193691	16	2.0	18	88	11	54	26	2	5	64	1.30
194156--194402	130	1.9	129	91	0	404	36	13	14	35	1.85
198179--198245	33	2.0	33	100	0	134	44	14	22	17	1.86
198212--198332	64	1.9	64	96	0	224	40	9	24	24	1.86
201910--201989	35	2.3	35	89	4	117	43	22	0	33	1.53
201923--202005	35	2.4	35	81	0	94	42	28	2	26	1.68
203730--203808	35	2.3	35	91	2	124	44	22	1	31	1.61
203730--203824	35	2.7	34	83	4	118	42	25	2	30	1.67
204601--204697	35	2.7	35	82	1	113	30	2	27	39	1.68
209618--209687	28	2.4	29	81	9	81	32	14	8	44	1.75
211626--211728	41	2.5	41	98	1	197	22	17	27	33	1.96
213015--213042	7	4.0	7	100	0	56	0	14	0	85	0.59
221434--221479	18	2.6	17	82	6	56	45	2	0	52	1.13
221462--221522	20	3.0	20	76	7	61	52	1	1	44	1.20
221470--221837	185	2.0	184	91	1	603	41	4	8	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
222064--222095	2	16.0	2	100	0	64	50	0	0	50	1.00
228130--228189	14	4.3	14	95	0	102	10	15	25	50	1.74
228159--228209	24	2.1	24	85	0	66	11	11	21	54	1.68
238390--238434	12	3.8	12	82	5	65	31	24	26	17	1.97
238384--238445	23	2.7	23	94	0	106	29	24	25	20	1.99
238384--238448	11	5.7	11	78	7	76	29	23	26	21	1.99
238702--238732	16	1.9	16	100	0	62	6	12	22	58	1.58
239734--239769	19	1.9	19	88	5	56	47	8	22	22	1.77
258745--258775	15	2.1	15	93	0	53	32	0	0	67	0.91
261348--261385	20	1.9	20	84	10	51	15	15	10	57	1.64
269532--269586	19	2.9	19	94	2	94	69	5	5	20	1.29
270426--270458	17	1.9	17	93	0	57	3	12	9	75	1.14
271011--271062	15	3.5	15	89	0	68	61	1	7	28	1.34
270934--271037	3	34.7	3	90	3	165	63	0	0	34	1.07
271340--272029	225	3.0	225	86	3	954	29	20	13	36	1.91
271346--272030	113	6.0	113	91	2	953	29	20	13	36	1.91
272649--272754	52	2.1	50	86	11	148	35	23	15	25	1.94
272587--272887	135	2.3	133	91	5	486	36	21	13	27	1.92
272786--272939	52	3.0	52	100	0	308	35	23	16	24	1.95
273717--273753	19	1.9	19	94	0	65	51	13	5	29	1.63
274082--274166	17	4.9	18	68	22	58	2	18	0	78	0.85
274101--274169	24	2.8	23	83	14	77	0	21	0	78	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
285568--285622	19	2.9	19	94	2	94	69	5	5	20	1.29
287041--287092	15	3.5	15	89	0	68	61	1	7	28	1.34
286985--287067	3	27.7	3	92	0	139	63	1	1	33	1.10
288369--288500	67	2.0	67	92	3	221	21	19	13	45	1.85
292773--292849	3	25.7	3	91	0	127	35	2	0	62	1.09
292764--292846	15	5.5	15	87	5	105	37	2	0	60	1.10
292845--292883	9	3.8	10	84	15	53	56	2	0	41	1.13
292969--293005	16	2.4	16	95	4	67	8	56	18	16	1.64
293191--293215	13	1.9	13	100	0	50	64	8	28	0	1.22
293202--293238	19	1.9	19	89	10	58	59	10	24	5	1.52
305505--305557	1	53.0	1	76	0	52	88	0	11	0	0.51
305502--305557	15	3.5	16	85	14	80	87	0	12	0	0.54
306526--306861	83	4.0	83	97	0	627	26	13	22	37	1.91
306696--307057	197	1.9	188	91	5	589	28	12	22	36	1.91
306935--307224	83	3.5	83	96	0	526	27	13	21	36	1.91
306609--307141	280	1.9	271	92	3	895	27	12	22	36	1.91
306884--307223	166	2.0	171	91	5	555	27	13	22	37	1.91
306524--307327	363	2.2	363	96	2	1484	28	12	22	36	1.91
308013--308532	113	4.8	103	86	6	528	37	13	19	29	1.90
308095--308564	113	4.2	113	92	0	719	37	14	18	30	1.90
308893--308972	3	26.7	3	89	0	106	38	2	0	58	1.11
308884--308970	15	6.4	14	76	18	78	40	2	0	57	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
308968--309006	9	3.8	10	84	15	53	56	2	0	41	1.13
308902--308981	15	5.3	15	71	21	53	41	2	0	56	1.13
308884--308981	21	4.7	21	82	5	119	41	2	0	56	1.11
309093--309144	16	3.3	16	97	2	97	5	57	19	17	1.59
309335--309359	13	1.9	13	100	0	50	64	8	28	0	1.22
309346--309382	19	1.9	19	89	10	58	59	10	24	5	1.52
313777--314116	36	9.8	36	79	8	283	32	27	20	20	1.97
313776--314116	72	4.9	72	78	9	341	32	27	19	20	1.97
313896--313947	24	2.2	24	92	0	86	30	26	19	23	1.98
313860--313991	60	2.2	60	94	0	228	29	30	20	19	1.97
313824--314019	96	2.0	96	87	1	277	30	29	20	19	1.98
313791--314061	132	2.1	132	83	1	337	32	27	20	19	1.97
316275--316591	167	1.9	167	89	2	494	33	20	15	30	1.94
324236--324268	9	3.7	9	95	0	57	27	6	0	66	1.15
325615--325654	19	2.0	20	85	4	55	40	0	0	60	0.97
327477--327567	31	2.9	31	77	9	114	21	16	25	36	1.94
327571--327605	18	1.9	18	94	0	61	31	14	28	25	1.95
331507--331539	15	2.1	17	88	11	52	39	6	21	33	1.78
332716--333197	67	7.7	66	73	16	425	27	21	17	33	1.96
332713--333213	123	4.1	123	88	1	718	28	20	17	32	1.96
332802--332884	27	3.0	27	73	13	96	30	16	18	34	1.93
333176--333243	27	2.5	27	85	4	84	30	16	14	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
335711--335815	54	2.0	53	92	1	174	44	8	18	28	1.79
336480--336539	3	20.0	3	100	0	120	33	0	0	66	0.92
338087--338173	33	2.7	33	96	1	158	17	21	11	49	1.78
341639--341697	20	3.0	20	78	9	77	28	28	20	22	1.98
344154--344179	12	2.2	12	100	0	52	50	0	7	42	1.31
347071--347157	45	1.9	45	90	0	138	32	22	9	35	1.86
347247--347375	59	2.2	59	87	0	177	27	25	18	27	1.98
354517--354603	45	1.9	45	90	0	138	32	22	9	35	1.86
354700--354821	59	2.1	59	85	0	163	28	23	18	29	1.97
363896--363945	23	2.0	24	85	11	66	54	6	0	40	1.25
363923--363959	18	2.1	18	90	10	58	51	2	0	45	1.15
380405--380449	14	3.3	14	87	3	56	33	6	0	60	1.23
386901--386926	2	13.0	2	100	0	52	50	0	0	50	1.00
387536--387570	17	2.1	17	94	5	63	11	25	37	25	1.90
395579--395649	35	2.0	35	100	0	142	46	8	11	33	1.70
400719--400764	23	2.0	23	100	0	92	30	17	13	39	1.87
405726--405785	29	2.1	29	84	3	77	70	6	5	18	1.29
405726--405787	31	2.1	29	84	6	79	69	6	4	19	1.29
405824--405855	5	6.6	5	92	7	57	62	0	0	37	0.95
405820--405855	15	2.6	14	87	12	56	63	0	0	36	0.94
407131--407158	2	14.0	2	100	0	56	50	0	0	50	1.00
407441--408215	105	7.4	105	96	0	1397	23	17	24	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
409028--409098	1	71.0	1	74	0	61	0	2	9	87	0.65
409028--409098	8	8.6	8	86	10	99	0	2	9	87	0.65
409020--409098	25	3.2	25	91	7	117	0	5	8	86	0.71
418548--418589	9	4.8	9	94	2	68	88	0	0	11	0.53
418548--418588	17	2.4	17	95	0	73	87	0	0	12	0.53
420907--420953	2	24.0	2	91	4	78	48	0	2	48	1.13
420902--420953	21	2.5	21	90	3	79	48	0	1	50	1.12
428772--428812	16	2.7	15	85	14	57	56	2	0	41	1.13
428772--428819	16	3.3	14	81	16	53	56	2	0	41	1.11
429932--430003	20	3.6	20	100	0	144	23	20	16	38	1.92

Tables:   1   2   3   4   5