genome.fa.s4507.2.7.7.80.10.50.1000.2.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: VEPZ01004507.1 Hibiscus syriacus cultivar Beakdansim tig00009942_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1776135

Tables:   1   2   3   4   5   6   7   8   

This is table  2  of  8  ( 904 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)
158037--158087	22	2.3	22	83	6	59	39	0	0	60	0.97
158033--158074	3	14.0	3	81	18	52	30	0	0	69	0.89
159292--159338	15	3.3	14	82	11	60	34	0	0	65	0.93
159424--159453	15	2.0	15	93	0	51	43	3	0	53	1.17
160563--160633	35	2.0	35	91	0	115	39	11	15	33	1.83
175404--175428	2	12.5	2	100	0	50	48	0	0	52	1.00
175742--175792	19	2.6	20	84	3	68	45	23	15	15	1.85
175779--175830	18	2.7	19	88	5	70	50	19	19	11	1.77
175865--176035	20	8.4	20	85	3	207	36	17	25	19	1.94
175844--176035	40	4.7	40	81	5	231	36	17	25	19	1.94
175844--176027	83	2.2	83	91	0	296	36	17	26	20	1.94
175742--176037	20	14.6	20	77	6	157	39	19	22	18	1.93
176024--176087	20	3.2	20	95	0	110	53	17	18	10	1.72
176165--176303	6	24.5	6	97	2	222	30	52	17	0	1.45
176971--177008	6	6.5	6	96	3	69	0	15	52	31	1.43
177086--177149	20	3.2	20	95	0	110	10	18	17	53	1.72
177136--177431	20	14.6	20	76	6	157	18	22	19	39	1.93
177138--177329	40	4.7	40	80	5	222	19	25	17	36	1.94
177146--177329	83	2.2	83	91	0	296	20	26	17	36	1.94
188395--188433	18	2.1	18	85	4	51	23	10	38	28	1.87
200968--201011	21	2.1	21	100	0	88	36	15	0	47	1.46
207727--207764	20	1.9	20	88	0	58	34	21	21	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
209028--209069	16	2.8	15	80	20	52	33	7	19	40	1.78
209373--209431	23	2.6	23	80	0	64	20	27	22	30	1.98
216184--216289	23	4.8	21	76	10	79	32	26	25	16	1.96
218355--218420	28	2.4	29	82	7	75	63	6	6	24	1.40
218366--218427	28	2.2	29	80	11	74	61	6	4	27	1.41
219560--219716	65	2.4	64	82	7	185	32	24	15	28	1.95
230521--230573	6	8.5	6	87	8	79	0	15	0	84	0.61
230520--230569	13	4.0	12	87	7	73	0	14	0	86	0.58
230521--230573	25	2.1	25	93	6	90	0	15	0	84	0.61
235101--235186	35	2.5	35	84	0	100	40	20	1	37	1.61
235155--235196	20	2.0	21	95	4	77	45	14	0	40	1.45
235311--235343	16	2.0	17	88	5	50	27	3	6	63	1.32
235797--236038	128	1.9	126	90	5	389	35	12	14	36	1.84
256695--256741	2	23.5	2	100	0	94	51	0	0	48	1.00
269149--269326	21	8.6	21	87	4	236	23	16	27	32	1.96
269254--269346	20	4.6	20	77	7	98	12	21	25	39	1.89
269148--269349	63	3.3	61	87	2	262	21	17	26	34	1.96
269173--269386	42	5.2	40	83	5	155	21	18	25	35	1.95
270122--270192	22	3.4	22	86	11	112	32	28	18	21	1.96
270130--270191	19	3.1	19	90	6	88	33	27	16	22	1.95
270181--270404	41	5.5	41	95	0	394	38	23	18	19	1.93
280361--280399	2	19.5	2	100	0	78	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
287364--287411	25	1.9	25	100	0	96	20	6	43	29	1.76
287730--287775	12	3.7	12	80	11	56	39	2	0	58	1.10
291697--291748	21	2.5	21	81	3	61	38	19	25	17	1.93
291737--291851	20	5.7	20	82	6	115	32	26	17	24	1.97
292039--292082	22	2.0	22	95	0	79	20	45	15	18	1.85
292345--292403	20	3.0	20	87	0	73	16	18	22	42	1.89
293723--293767	18	2.5	18	92	0	81	28	44	13	13	1.81
294249--294294	20	2.3	20	84	0	56	36	23	21	17	1.94
294260--294304	20	2.3	20	88	3	74	37	17	24	20	1.93
294268--294383	19	6.6	19	71	21	92	43	21	21	13	1.87
294304--294361	14	3.9	14	79	16	71	48	24	17	10	1.78
294288--294378	32	2.8	33	94	3	166	47	21	18	12	1.81
294395--294452	14	3.9	14	77	16	62	8	15	25	50	1.73
294390--294468	32	2.4	33	93	2	133	10	17	24	48	1.78
294453--294508	20	2.8	19	86	7	76	16	25	23	35	1.94
296373--296408	14	2.6	14	90	0	54	30	0	22	47	1.52
296495--296591	19	5.7	18	75	22	93	43	19	21	15	1.88
296610--296667	20	2.9	20	97	0	107	15	22	24	37	1.93
296891--296951	19	3.5	19	68	21	60	47	18	19	14	1.82
296963--297086	33	3.7	33	83	1	140	15	22	16	45	1.84
297861--297914	24	2.2	24	90	0	81	24	16	20	38	1.92
298086--298110	12	2.1	12	100	0	50	72	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
298301--298434	66	2.0	66	100	0	268	46	15	14	23	1.83
300451--300509	19	3.4	19	73	22	74	45	18	22	13	1.84
300634--300670	14	2.6	14	91	0	65	45	24	0	29	1.53
302631--302948	166	1.9	163	98	1	609	33	26	15	25	1.95
304461--304559	33	3.0	33	92	1	162	39	23	26	11	1.88
304436--304581	19	8.1	19	72	17	114	42	20	24	12	1.86
304577--304643	19	3.5	18	78	11	71	10	16	23	49	1.77
305161--305213	20	2.7	20	90	0	79	26	20	26	26	1.99
305326--305366	21	2.0	21	85	0	55	34	31	17	17	1.93
309614--309654	12	3.4	12	86	0	55	12	34	19	34	1.89
310006--310035	15	2.0	15	100	0	60	20	20	33	26	1.97
311545--311754	111	1.9	111	94	2	368	45	11	6	36	1.66
311890--311930	10	4.1	10	84	12	57	39	0	29	31	1.57
318633--318688	28	2.0	28	96	0	103	21	19	17	41	1.91
326214--326241	14	2.0	14	100	0	56	42	7	7	42	1.59
328210--328279	35	2.0	34	94	2	122	47	10	0	42	1.37
328210--328274	15	3.6	18	78	19	73	47	10	0	41	1.38
330221--330318	51	1.9	51	89	0	151	40	13	6	39	1.69
331443--331468	2	13.0	2	100	0	52	50	0	0	50	1.00
331571--331595	3	8.3	3	100	0	50	32	0	0	68	0.90
334416--334497	36	2.2	36	85	6	103	31	19	10	37	1.87
334653--334863	66	3.2	66	89	2	316	26	19	14	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
336913--336956	21	2.0	21	86	4	61	27	29	18	25	1.98
336913--336965	22	2.4	22	84	6	63	28	28	16	26	1.97
337590--337650	21	2.9	21	75	2	50	29	22	22	24	1.99
339669--339816	40	3.6	40	70	12	111	26	33	16	23	1.95
339517--339768	131	1.9	131	83	3	328	28	30	15	25	1.96
340023--340090	3	22.7	3	96	0	100	33	26	0	39	1.57
340592--340653	8	7.5	8	76	5	61	77	1	17	3	0.98
344756--344832	37	2.1	38	92	2	129	35	15	12	36	1.86
346249--346309	23	2.7	23	89	0	95	27	24	27	19	1.99
346790--346836	2	24.0	2	83	12	53	42	6	0	51	1.27
346790--346830	15	2.7	15	96	3	73	41	7	0	51	1.30
347742--347798	20	2.6	22	75	16	64	31	19	15	33	1.93
348731--348814	37	2.3	38	93	4	145	36	16	13	33	1.87
354113--354156	21	2.0	22	91	4	72	27	22	27	22	1.99
358968--359036	34	2.0	34	100	0	138	42	17	11	28	1.84
360522--360563	22	1.9	22	90	0	66	21	23	23	30	1.99
361104--361155	21	2.4	21	87	3	68	28	21	25	25	1.99
364355--364416	27	2.2	28	88	2	90	46	22	9	20	1.80
369301--369479	2	92.5	2	70	22	116	43	3	3	49	1.37
369305--369456	32	4.8	32	84	8	170	44	3	3	49	1.35
376468--376513	2	23.0	2	95	0	83	50	0	2	47	1.13
379149--379185	19	1.9	19	94	0	65	29	35	24	10	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389497--389590	30	3.3	26	74	20	66	55	3	0	41	1.16
389533--389609	32	2.5	31	76	18	79	54	1	0	44	1.08
389587--389621	17	2.1	17	88	0	52	48	0	0	51	1.00
389746--389785	19	2.1	19	90	9	64	45	0	0	55	0.99
390052--390132	30	2.7	30	82	3	101	38	6	7	48	1.56
394546--394741	51	3.8	51	84	5	234	26	25	17	30	1.97
394752--394861	37	3.0	37	90	0	166	23	17	19	40	1.91
396144--396308	33	4.8	33	72	21	124	10	15	0	73	1.08
396130--396307	26	6.7	26	71	23	113	9	15	0	74	1.06
396253--396304	18	2.9	18	76	0	59	11	13	0	75	1.06

Tables:   1   2   3   4   5   6   7   8