genome.fa.s5189.2.7.7.80.10.50.1000.2.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: VEPZ01005189.1 Hibiscus syriacus cultivar Beakdansim tig00011718_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1183632

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 686 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)
236541--236576	19	1.9	18	94	5	63	55	5	0	38	1.23
236528--236582	18	3.0	18	76	12	58	61	3	0	34	1.13
236702--236759	31	2.0	31	86	10	86	53	0	0	46	1.00
236702--236761	28	2.1	28	84	6	77	53	0	0	46	1.00
237839--237911	31	2.4	31	83	4	85	50	9	9	30	1.67
245198--245277	3	26.7	3	92	5	135	65	0	0	35	0.93
248305--248553	98	2.5	99	84	6	310	26	21	12	39	1.89
249364--249421	28	2.1	28	96	0	107	34	6	44	13	1.71
252611--252859	98	2.5	99	84	6	310	26	21	12	39	1.89
253672--253729	28	2.1	28	96	0	107	34	6	44	13	1.71
256913--257159	98	2.5	98	83	8	299	26	21	12	39	1.89
257973--258030	28	2.1	28	96	0	107	34	6	44	13	1.71
261225--261484	97	2.7	97	84	8	323	26	20	13	39	1.89
262286--262344	29	2.1	29	93	3	102	33	6	45	13	1.70
267547--267586	2	20.0	2	89	0	53	52	5	0	42	1.23
267531--267577	18	2.6	18	96	0	85	55	10	0	34	1.35
269261--269312	20	2.5	21	84	3	70	38	19	23	19	1.93
269298--269389	41	2.2	41	92	0	148	40	23	17	18	1.91
269301--269375	20	3.7	20	77	10	80	36	25	18	20	1.95
269299--269389	20	4.4	20	72	13	69	39	24	17	18	1.92
269696--269756	20	3.0	20	92	0	104	39	22	21	16	1.92
269775--269839	19	3.7	19	86	13	95	13	21	18	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
269979--270015	14	2.6	14	86	0	56	48	21	0	29	1.50
271885--271952	20	3.5	20	85	2	93	39	23	22	14	1.91
271941--271998	14	3.9	14	79	16	71	48	24	17	10	1.78
271925--272003	32	2.4	33	95	2	142	46	22	18	11	1.81
272533--272577	18	2.5	18	88	0	72	13	15	44	26	1.83
273897--273950	20	2.7	19	80	8	63	50	22	14	12	1.77
274415--274467	20	2.7	20	81	0	70	24	20	28	26	1.99
274476--274545	20	3.7	19	77	14	83	27	20	21	31	1.98
274616--274656	21	2.0	21	85	0	55	34	29	17	19	1.94
274954--274985	16	2.0	16	93	0	55	59	0	0	40	0.97
279373--279490	59	2.0	59	91	0	191	26	19	11	42	1.86
283422--283497	30	2.5	31	86	2	100	34	9	11	44	1.73
283744--283845	27	3.7	27	80	11	93	42	3	0	52	1.26
283815--283900	31	2.8	31	78	16	106	37	2	3	56	1.29
284738--284786	6	8.2	6	100	0	98	48	0	0	51	1.00
286590--286622	13	2.5	13	95	0	57	30	30	24	15	1.95
286616--286673	17	3.4	17	95	0	107	17	24	41	17	1.90
286667--286737	19	3.7	19	88	1	97	28	29	23	18	1.98
286667--286736	9	7.3	9	73	12	59	28	30	24	17	1.97
293860--293889	13	2.2	14	94	5	53	23	30	30	16	1.96
293879--293936	17	3.4	17	97	0	107	15	24	43	17	1.87
293860--293889	7	4.4	7	91	8	53	23	30	30	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
293938--294001	19	3.3	19	93	2	101	26	29	25	18	1.98
293938--294001	9	6.6	10	77	13	71	26	29	25	18	1.98
294862--294932	31	2.3	31	82	0	88	16	15	22	45	1.85
308044--308098	20	2.8	20	97	0	101	21	32	29	16	1.95
313832--313871	21	1.9	21	89	0	62	25	40	25	10	1.86
323576--323635	25	2.5	24	73	10	59	58	1	1	38	1.18
323820--323858	20	2.0	19	85	5	51	48	0	0	51	1.00
335023--335054	2	16.0	2	100	0	64	50	0	0	50	1.00
337871--337960	26	3.5	26	66	21	62	45	11	3	40	1.56
337953--337999	20	2.4	20	79	10	53	68	6	2	23	1.24
338058--338082	13	1.9	13	100	0	50	72	0	0	28	0.86
341600--341644	18	2.5	18	85	0	63	35	15	26	22	1.94
343499--343541	21	2.0	22	82	13	54	30	6	4	58	1.45
352017--352082	27	2.5	26	90	2	105	56	21	9	13	1.65
352017--352085	26	2.6	27	90	2	113	55	20	10	14	1.68
356274--356314	20	2.1	19	86	4	55	43	12	19	24	1.85
356279--356320	20	2.1	20	82	8	50	45	14	14	26	1.83
356706--356735	15	2.0	15	93	0	51	40	10	16	33	1.82
359915--359969	21	2.6	21	97	0	101	29	14	9	47	1.75
360570--360630	15	3.9	16	76	16	56	8	22	1	67	1.27
362122--362170	21	2.2	23	85	10	66	32	24	16	26	1.96
370158--370291	40	3.4	40	73	13	125	54	12	0	32	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
370238--370655	32	14.7	32	72	23	332	53	12	0	33	1.39
370270--370880	54	11.2	54	71	18	367	52	12	0	34	1.39
370298--370340	22	2.0	21	95	4	77	51	9	0	39	1.34
370356--370398	22	2.0	22	100	0	86	51	13	0	34	1.42
370383--370482	26	3.6	26	74	19	103	55	17	0	28	1.42
370548--370590	22	2.0	22	100	0	86	51	13	0	34	1.42
370550--370598	22	2.2	22	88	3	71	55	14	0	30	1.40
370179--370880	246	2.9	246	84	9	898	53	12	0	34	1.39
370238--370814	278	2.1	275	87	7	810	53	12	0	33	1.40
370516--370814	80	3.7	80	90	3	411	52	13	0	34	1.41
370762--370865	32	3.6	30	73	26	107	53	10	0	35	1.35
370794--370836	22	2.0	22	95	0	77	53	11	0	34	1.37
370812--370897	33	2.5	35	86	7	113	52	6	0	40	1.28
370868--370912	15	3.0	15	90	0	72	46	0	0	53	1.00
371353--371415	31	2.1	31	81	3	74	36	14	7	41	1.75
377269--377299	4	7.8	4	100	0	62	74	25	0	0	0.82
379289--379316	5	5.6	5	100	0	56	0	0	78	21	0.75
379590--379646	2	28.5	2	100	0	114	49	0	0	50	1.00
385165--385253	44	2.1	42	83	8	108	53	25	3	16	1.58
387341--387404	31	1.9	33	84	12	87	56	7	6	29	1.52
388853--388887	2	17.5	2	100	0	70	51	0	0	48	1.00
394321--394351	15	2.1	15	93	0	53	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400416--400456	14	2.9	14	100	0	82	21	0	26	51	1.48
400412--400456	16	2.8	16	86	0	63	24	0	24	51	1.49
400418--400465	12	3.8	12	86	5	60	18	2	29	50	1.59
402155--402224	10	6.7	10	71	26	56	24	37	28	10	1.88
402158--402243	14	5.4	14	70	24	55	24	37	30	8	1.84
402172--402224	20	2.7	20	88	2	81	24	35	30	9	1.87
402172--402224	10	5.4	10	75	20	58	24	35	30	9	1.87
409845--409979	21	6.4	21	95	0	234	22	26	22	28	1.99
410662--410717	21	2.7	21	88	0	85	30	25	25	19	1.98
410709--410765	21	2.7	21	80	0	69	29	19	21	29	1.97
411970--412018	24	2.0	24	84	0	62	16	18	18	46	1.84
414686--414806	59	2.0	60	84	4	156	39	14	13	32	1.85
414710--414831	60	2.1	59	81	10	142	38	14	12	34	1.84
418706--418788	29	2.8	28	74	5	76	40	8	8	42	1.65
418674--418822	58	2.5	59	77	13	153	41	6	9	42	1.62
419125--419180	26	2.2	26	83	6	69	23	12	10	53	1.69
419178--419362	94	2.0	93	80	8	205	30	10	3	55	1.51
419601--419636	18	2.0	18	100	0	72	22	22	33	22	1.97
420467--420558	10	9.2	10	96	0	157	0	53	0	46	1.00
420467--420558	6	15.3	6	95	0	157	0	53	0	46	1.00
420467--420558	4	23.0	4	95	0	157	0	53	0	46	1.00
426396--426600	75	2.7	76	85	7	267	21	23	31	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433123--433344	117	1.9	118	84	6	299	28	13	9	48	1.73
434651--434854	75	2.7	76	87	3	279	20	24	31	23	1.98
435764--435814	22	2.3	22	96	0	93	37	33	7	21	1.82
438395--438435	20	2.0	20	85	4	55	29	2	0	68	1.03
438400--438447	22	2.3	20	82	7	51	31	6	0	62	1.20
439036--439126	31	3.0	31	96	3	168	32	6	17	42	1.75
439266--439307	21	2.0	21	90	0	66	23	19	28	28	1.98
439336--439375	20	1.9	21	85	10	55	37	35	10	17	1.83
439590--439659	34	2.1	32	89	5	104	31	15	31	21	1.95
443355--443388	17	2.0	17	88	0	50	26	23	23	26	2.00

Tables:   1   2   3   4   5   6