genome.fa.s5546.2.7.7.80.10.50.1000.2.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: VEPZ01005546.1 Hibiscus syriacus cultivar Beakdansim tig00012840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1755203

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)
252938--253089	55	2.8	55	87	5	193	30	19	19	30	1.97
257517--257858	49	7.0	49	93	0	540	38	16	20	24	1.92
260341--260390	13	3.7	14	92	7	86	28	14	22	36	1.92
263461--263533	36	2.0	36	100	0	146	31	24	5	38	1.78
264407--265033	5	124.4	5	81	15	696	57	1	0	40	1.12
264511--265031	71	7.3	70	81	16	471	58	0	0	40	1.05
264406--265031	61	9.6	65	81	16	648	57	1	0	40	1.12
266357--266432	2	38.0	2	100	0	152	50	0	0	50	1.00
266980--267012	12	2.8	12	90	4	50	51	12	0	36	1.39
267285--267359	20	3.7	20	69	13	53	33	18	21	26	1.96
267253--267366	42	2.7	41	79	4	138	29	21	21	28	1.98
267420--267957	53	10.0	53	84	4	569	41	20	9	29	1.83
267809--268164	55	6.5	55	84	1	410	40	14	8	35	1.77
272577--272786	106	2.0	106	100	0	420	38	9	20	32	1.83
274623--274713	3	30.7	3	73	18	75	28	1	2	68	1.09
274627--274714	35	2.6	33	78	15	90	28	1	2	68	1.09
275533--275928	131	3.0	131	85	1	508	34	10	15	39	1.82
284802--284857	23	2.4	23	93	0	94	26	23	26	23	2.00
287154--287438	134	2.2	134	83	3	364	32	21	15	29	1.95
289170--289303	61	2.2	61	78	7	139	19	11	11	57	1.64
291621--291652	12	2.6	13	90	9	50	15	18	21	43	1.87
296215--296253	20	2.0	20	85	10	53	38	23	2	35	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
296685--296722	19	2.0	19	94	0	67	26	23	5	44	1.74
298446--298881	55	7.9	55	90	1	631	35	17	11	35	1.85
298441--298881	221	2.0	221	90	0	693	35	17	11	35	1.85
303817--303856	21	1.9	21	94	0	71	15	22	7	55	1.65
303818--303863	21	2.3	20	85	7	58	15	23	6	54	1.64
307336--307660	55	5.9	55	92	1	533	35	18	11	34	1.86
307336--307660	166	2.0	166	92	0	542	35	18	11	34	1.86
307334--307660	111	3.0	110	92	1	537	35	18	11	34	1.87
310533--310623	23	4.1	21	78	7	83	34	25	21	18	1.96
310541--310628	44	2.0	46	88	4	135	32	22	25	19	1.97
310791--310832	19	2.4	18	88	11	61	47	14	7	30	1.71
310785--310832	17	2.8	18	81	18	66	45	12	8	33	1.72
310854--310882	15	1.9	15	100	0	58	37	20	6	34	1.80
315240--315309	23	3.1	22	85	8	79	67	0	2	30	1.05
315263--315308	5	9.6	5	79	9	51	67	0	0	32	0.91
315251--315303	28	1.9	26	81	14	54	69	0	1	28	0.99
315263--315330	28	2.5	27	88	4	93	67	0	1	30	0.99
316547--316760	7	29.0	7	72	16	130	50	6	1	41	1.35
316531--316760	31	7.7	29	70	18	102	50	6	1	41	1.37
321007--321101	24	3.9	23	78	19	95	70	0	7	22	1.11
321020--321065	12	3.8	12	80	13	58	73	0	6	19	1.04
321035--321102	4	16.0	4	72	22	50	70	0	7	22	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
321005--321097	42	2.2	44	88	3	136	70	0	7	21	1.11
321023--321101	24	3.3	24	81	13	108	72	0	7	20	1.09
321044--321089	18	2.6	17	86	10	65	69	0	10	19	1.17
326422--326455	18	1.9	18	88	5	52	20	5	2	70	1.21
328014--328075	31	2.0	30	84	9	81	72	1	3	22	1.08
329263--329521	7	31.9	8	67	23	63	51	5	1	40	1.35
329319--329425	15	6.9	15	76	14	69	54	6	0	38	1.33
329335--329523	5	33.5	6	67	24	110	49	6	1	42	1.35
329335--329523	2	100.5	2	68	23	110	49	6	1	42	1.35
331086--331135	2	25.0	2	100	0	100	50	0	0	50	1.00
334846--334970	42	3.0	41	73	4	108	33	20	20	26	1.96
334864--334977	42	2.7	41	76	6	113	31	20	20	28	1.97
336355--336497	76	1.9	76	98	0	277	55	14	9	20	1.67
341825--341891	21	3.2	20	76	17	57	31	23	20	23	1.98
343465--343506	21	2.0	21	85	0	57	9	40	16	33	1.81
343834--343862	14	2.0	15	93	6	51	6	3	27	62	1.37
344530--344655	65	2.0	64	83	10	159	34	19	18	26	1.95
344596--344702	45	2.4	45	85	4	126	29	19	20	29	1.97
348828--348937	38	2.7	41	72	14	104	30	22	19	27	1.98
350859--351009	64	2.4	64	95	0	266	40	9	11	39	1.73
351226--351706	53	9.1	53	81	3	513	41	17	10	30	1.83
351656--351845	54	3.5	54	81	3	222	44	12	8	34	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376969--377015	3	15.3	3	81	16	53	29	2	2	65	1.15
378026--378236	108	1.9	109	82	4	266	22	14	18	45	1.85
379037--379432	131	3.0	130	89	2	596	32	11	15	40	1.83
379039--379434	132	3.0	132	87	4	559	32	10	15	40	1.82
385426--385470	19	2.4	19	85	14	58	51	15	6	26	1.68
385573--385946	132	2.8	132	74	10	330	29	20	17	32	1.95
386132--386201	3	23.3	3	75	16	65	32	1	0	65	1.01
386132--386193	11	5.8	10	78	19	63	30	1	0	67	1.00
387085--387313	108	2.1	107	85	5	300	18	14	20	46	1.84
389567--390066	34	12.6	41	66	23	247	28	24	11	35	1.90
389557--390080	79	6.6	79	90	0	807	27	23	12	36	1.90
390617--390673	21	2.7	21	94	0	96	35	17	14	33	1.90
394812--394965	80	1.9	79	93	1	263	27	24	12	35	1.91
394901--395078	34	4.9	34	78	16	187	28	23	11	36	1.89
394821--395078	113	2.3	114	91	3	430	28	23	11	36	1.90
394935--395135	79	2.5	79	89	4	307	27	24	10	37	1.89
394980--395123	45	3.5	44	74	20	164	29	24	11	34	1.91
396479--396762	131	2.2	130	83	1	363	32	9	15	43	1.78
413372--413710	54	6.3	54	90	2	484	29	17	19	32	1.95
419823--420009	95	2.0	95	82	4	234	36	15	22	25	1.93
419823--420030	96	2.2	95	81	3	240	36	15	23	24	1.93
420363--420631	54	5.0	54	81	6	321	29	17	18	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420362--420642	108	2.6	108	85	1	375	29	17	19	34	1.94
421973--422030	26	2.2	25	77	14	64	44	3	25	25	1.70
424608--424703	46	2.2	43	81	5	120	18	17	26	37	1.93
424600--424724	23	5.7	22	72	10	78	19	17	26	36	1.94
427818--427924	54	1.9	54	84	5	142	31	17	5	44	1.72
432139--432193	23	2.4	23	84	0	65	18	21	23	36	1.95
432187--432227	21	1.9	22	85	5	57	19	21	21	36	1.95
432697--432738	21	1.9	23	85	9	61	30	7	9	52	1.61
433967--434016	26	1.9	26	88	8	75	32	2	0	66	1.03
433972--434050	22	3.6	21	75	16	72	30	2	0	67	1.04
436980--437027	24	2.0	25	95	4	89	43	12	16	27	1.84
441535--441575	11	3.7	11	86	0	55	58	2	0	39	1.11
441537--441576	19	2.1	19	86	9	55	57	2	0	40	1.12
441928--443364	67	21.4	67	91	0	2295	29	16	23	30	1.96
450800--450861	24	2.5	24	81	5	70	69	0	4	25	1.08
451322--451369	20	2.3	22	82	7	64	22	35	12	29	1.91
452001--452042	11	3.8	11	87	0	57	59	2	0	38	1.10
452004--452043	19	2.1	19	86	9	55	57	2	0	40	1.12
453773--453926	59	2.6	58	81	4	166	38	5	20	35	1.75
466366--466603	20	10.7	20	70	21	145	43	11	23	21	1.85
466386--466615	46	5.0	46	89	2	354	44	12	21	20	1.85
466341--466582	20	10.5	25	66	21	113	44	12	22	20	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468412--468621	104	2.0	104	86	1	296	27	10	18	43	1.82
469151--469230	40	2.0	40	85	7	108	51	13	3	31	1.59
469371--469412	15	2.8	16	78	10	52	7	14	28	50	1.69
470809--470854	19	2.4	19	96	0	83	23	17	15	43	1.87
471472--471600	42	3.1	41	81	2	141	23	39	7	29	1.82
474431--474623	55	3.5	55	93	0	316	33	11	19	35	1.88
474628--474809	55	3.3	55	91	0	301	34	12	17	35	1.88
485626--485682	22	2.6	22	88	5	80	57	10	15	15	1.64
494881--494929	23	2.1	24	81	7	57	44	32	2	20	1.63
497987--498195	103	2.0	104	99	0	411	26	17	22	34	1.95

Tables:   1   2   3   4   5   6   7   8