genome.fa.s9149.2.7.7.80.10.50.1000.2.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: VEPZ01009149.1 Hibiscus syriacus cultivar Beakdansim tig00112673_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1143513

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 649 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)
265592--265648	14	4.0	14	72	9	53	12	3	0	84	0.75
277324--277362	20	2.0	20	94	0	69	25	10	10	53	1.66
281245--281290	20	2.3	19	85	14	58	26	15	8	50	1.73
298049--298087	21	1.9	20	89	5	60	33	25	15	25	1.95
303622--303705	2	42.0	2	100	0	168	50	0	0	50	1.00
306661--306699	20	2.0	20	89	0	60	28	10	0	61	1.28
307619--307664	22	2.2	21	88	7	67	39	0	0	60	0.97
307622--307666	3	14.7	3	82	13	56	40	0	0	60	0.97
314019--314194	93	1.9	93	86	0	253	28	17	15	37	1.91
316769--316854	29	3.1	29	65	21	76	34	25	10	29	1.89
316722--317078	53	6.7	53	81	3	353	32	24	14	28	1.95
317259--317322	3	21.7	3	87	9	96	37	0	0	62	0.95
321500--321530	7	4.3	7	95	4	53	83	16	0	0	0.64
322451--322596	73	2.0	73	98	0	283	30	19	10	39	1.86
324720--324763	20	2.2	20	91	0	70	56	0	0	43	0.99
325931--325976	23	2.0	23	82	0	56	23	10	17	47	1.79
336900--337020	43	2.8	42	83	7	134	29	17	26	26	1.97
336916--337213	43	6.9	43	77	6	201	24	18	25	31	1.97
336943--337168	86	2.6	86	76	1	229	22	19	26	32	1.97
338942--338988	22	2.1	22	100	0	94	51	12	19	17	1.77
340906--341213	42	7.4	41	81	7	336	31	17	21	28	1.96
340906--341191	83	3.4	83	91	0	448	32	17	22	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
349659--349699	21	1.9	22	90	5	66	39	9	21	29	1.86
351572--351629	21	2.8	20	76	10	55	39	15	15	29	1.88
352083--352179	32	3.1	31	82	2	113	25	19	21	32	1.97
355544--355598	21	2.5	22	82	11	69	32	18	21	27	1.96
355622--355675	19	2.6	21	86	11	76	22	20	31	25	1.98
355622--355674	22	2.6	20	88	8	72	22	20	32	24	1.98
356013--356060	2	24.0	2	100	0	96	50	0	0	50	1.00
356962--357051	32	2.9	31	86	1	117	27	21	20	31	1.98
356961--357056	31	3.1	31	84	1	120	27	19	21	31	1.98
359235--359284	24	2.1	23	85	10	66	76	2	14	8	1.10
360118--360441	133	2.4	132	80	2	362	32	20	15	30	1.94
362796--363191	131	3.0	131	85	2	571	32	11	15	40	1.83
364692--364743	21	2.5	21	81	3	61	38	19	25	17	1.93
364732--364906	20	8.6	20	84	5	192	32	24	18	25	1.97
364731--364906	81	2.2	82	81	7	207	32	24	18	25	1.97
364732--364900	61	2.8	60	84	4	205	32	24	17	24	1.97
365380--365438	20	3.0	20	84	0	64	18	18	20	42	1.90
365575--365629	25	2.2	24	78	15	58	20	9	18	52	1.71
366757--366801	18	2.5	18	85	0	63	26	42	15	15	1.87
367257--367312	20	2.8	20	83	2	69	37	23	23	16	1.93
367326--367392	19	3.8	19	71	18	72	49	20	17	11	1.79
367345--367376	14	2.4	14	94	5	57	53	25	12	9	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
367296--367387	33	2.8	33	93	0	148	51	20	16	11	1.76
367429--367484	20	2.8	19	86	7	76	16	25	23	35	1.94
369355--369390	14	2.6	14	90	0	54	30	0	22	47	1.52
369527--369581	20	2.8	19	91	5	92	47	14	21	16	1.82
369588--369641	20	2.7	20	94	0	90	16	24	22	37	1.94
369855--369946	20	4.6	20	73	2	76	20	18	21	39	1.93
370179--370212	12	2.9	12	86	4	52	17	41	5	35	1.74
370767--370820	24	2.2	24	90	0	81	22	16	20	40	1.91
370995--371037	3	14.3	3	85	0	59	72	0	27	0	0.85
370995--371043	12	4.1	12	97	0	89	71	0	28	0	0.86
373335--373393	19	3.4	19	71	22	65	47	16	22	13	1.82
373335--373461	33	3.8	33	85	4	184	44	18	22	14	1.86
373335--373465	19	7.7	19	62	23	58	44	19	22	13	1.86
373336--373468	66	2.0	66	94	0	230	42	18	22	15	1.88
373461--373502	19	2.2	19	91	0	66	16	19	23	40	1.91
373470--373536	19	3.8	19	75	18	81	11	22	20	44	1.84
373643--373679	14	2.6	14	91	0	65	45	24	0	29	1.53
374020--374087	19	3.8	19	83	14	92	47	16	22	14	1.82
374094--374181	40	2.4	36	81	12	99	15	20	22	40	1.90
374381--374472	20	4.6	20	71	2	67	20	17	21	40	1.92
374457--374506	20	2.4	21	86	3	66	20	24	16	40	1.91
374705--374738	12	2.9	12	86	4	52	17	41	5	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375293--375346	24	2.2	24	86	0	72	24	16	18	40	1.90
375521--375545	12	2.1	12	100	0	50	72	0	28	0	0.86
377837--377895	19	3.4	19	69	26	58	49	16	20	13	1.80
377837--377963	33	3.8	33	79	10	143	45	18	20	15	1.85
377847--377970	66	1.9	66	93	0	212	45	17	20	16	1.86
377972--378016	19	2.4	19	92	0	81	13	22	17	46	1.83
378131--378167	14	2.6	14	91	0	65	45	24	0	29	1.53
378336--378371	14	2.6	14	90	0	54	30	0	22	47	1.52
378508--378575	19	3.6	19	97	0	127	48	13	20	17	1.80
378621--378708	20	4.4	20	78	5	106	15	21	25	37	1.93
378601--378688	40	2.4	36	81	12	99	15	20	22	40	1.90
378922--378971	20	2.5	20	76	0	64	22	16	22	40	1.91
378998--379049	20	2.5	21	87	3	70	21	23	17	38	1.93
379246--379279	12	2.9	12	86	4	52	17	41	5	35	1.74
379834--379887	24	2.2	24	86	0	72	24	16	18	40	1.90
380062--380086	12	2.1	12	100	0	50	72	0	28	0	0.86
382378--382504	33	3.8	33	86	4	193	42	18	22	15	1.89
382383--382511	66	2.0	66	96	0	240	42	17	22	17	1.89
382504--382545	19	2.2	19	86	0	57	19	19	21	40	1.92
382653--382689	14	2.6	14	91	0	65	45	24	0	29	1.53
384045--384111	21	3.2	21	68	4	55	19	20	35	23	1.95
384045--384167	42	2.9	41	79	7	113	22	18	36	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384385--384569	91	2.0	92	90	6	295	48	17	11	22	1.80
386281--386307	14	1.9	14	100	0	54	40	22	29	7	1.81
386256--386381	19	7.1	19	74	18	119	46	19	23	11	1.81
386256--386382	52	2.4	53	92	2	211	46	18	22	11	1.82
386393--386443	19	2.6	20	81	3	68	13	17	21	47	1.82
386935--386987	20	2.7	20	93	0	88	26	20	28	24	1.99
386996--387049	20	2.7	20	97	0	99	25	18	24	31	1.97
386936--387052	61	1.9	61	85	0	162	23	17	24	33	1.97
386936--387070	61	2.2	61	80	2	146	22	19	24	33	1.97
387120--387160	21	2.0	21	85	0	55	34	29	17	19	1.94
391158--391250	34	2.7	34	80	9	91	33	0	4	62	1.15
391209--391260	26	2.0	26	88	0	77	36	0	1	61	1.07
391198--391277	41	1.9	44	82	14	107	35	0	2	62	1.09
396260--396301	18	2.3	19	80	12	52	64	0	0	35	0.94
396467--396519	21	2.5	21	84	0	70	20	26	18	33	1.96
396509--396602	20	4.7	20	86	2	143	38	20	21	20	1.94
396509--396602	41	2.3	40	89	3	143	38	20	21	20	1.94
396829--396881	27	2.0	27	85	3	72	33	37	9	18	1.83
397156--397225	20	3.5	20	86	5	88	48	21	17	12	1.80
397266--397392	20	7.1	19	67	20	85	12	22	18	45	1.83
397271--397392	33	3.5	33	83	8	145	12	22	18	46	1.82
399084--399459	94	4.1	94	92	2	584	22	12	17	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399556--399613	19	3.0	20	84	5	91	50	18	22	8	1.74
399576--399673	33	2.9	33	83	1	133	48	24	18	8	1.75
399642--399679	20	1.9	20	94	0	67	50	28	13	7	1.69
399685--399748	19	3.6	19	72	20	75	12	23	21	42	1.87
400169--400291	42	2.9	42	80	2	113	22	35	17	24	1.95
400225--400291	21	3.2	21	66	6	55	23	35	19	20	1.95
401642--401677	14	2.6	14	95	0	63	33	0	22	44	1.53
401801--401838	14	2.7	14	87	0	58	50	23	18	7	1.73
401851--402001	19	8.7	19	65	21	89	12	24	19	43	1.85
401855--401981	33	3.8	33	96	0	227	12	24	18	44	1.84

Tables:   1   2   3   4   5   6