genome.fa.s9587.2.7.7.80.10.50.1000.27.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  27  of  29  ( 3457 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)
6057405--6057455	15	3.0	18	77	16	72	21	31	21	25	1.98
6057437--6057479	22	2.0	22	95	0	77	30	23	20	25	1.99
6057405--6057473	37	2.0	33	86	11	93	24	30	20	24	1.99
6057914--6057984	34	2.1	33	86	2	97	32	15	29	22	1.95
6064666--6064706	21	2.0	21	95	0	73	39	12	21	26	1.89
6065814--6065874	8	7.9	8	74	18	58	36	1	0	62	1.05
6065791--6065874	16	5.2	16	76	16	68	36	3	1	58	1.23
6066589--6067055	36	13.0	36	78	8	463	26	38	12	22	1.89
6066931--6067072	72	1.9	75	91	4	236	27	40	11	21	1.87
6071321--6071402	32	2.6	32	84	0	92	32	13	21	31	1.92
6073610--6073646	19	1.9	19	88	0	56	48	13	2	35	1.57
6073952--6073993	20	2.0	23	86	13	63	21	21	9	47	1.79
6089180--6089212	13	2.4	14	95	5	59	57	0	0	42	0.98
6089311--6089347	19	1.9	19	88	0	56	59	0	0	40	0.97
6089499--6089549	23	2.2	23	82	0	57	45	1	1	50	1.24
6089537--6089617	19	4.3	19	71	20	55	46	1	1	50	1.17
6089682--6089732	23	2.2	23	92	0	84	43	1	3	50	1.31
6089717--6089765	22	2.2	22	88	0	71	46	0	0	53	1.00
6089715--6089773	30	1.9	32	89	6	95	49	0	0	50	1.00
6089729--6089785	22	2.7	21	81	10	62	50	0	0	49	1.00
6094690--6094738	20	2.5	20	96	0	89	42	20	12	24	1.86
6095275--6095332	26	2.2	26	100	0	116	22	15	22	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6097408--6097608	109	1.8	110	83	3	271	48	14	14	21	1.81
6099273--6099326	23	2.3	23	96	0	99	40	24	3	31	1.72
6104090--6104141	2	26.0	2	100	0	104	50	0	0	50	1.00
6105040--6105208	31	5.6	29	74	16	96	37	13	7	41	1.72
6105071--6105145	29	2.6	29	81	10	89	40	12	9	38	1.75
6105071--6105142	30	2.4	30	86	6	94	40	12	9	37	1.76
6105261--6105319	29	2.0	29	86	0	82	42	13	6	37	1.71
6105284--6105366	31	2.8	30	81	5	96	40	13	12	33	1.81
6110169--6110307	71	2.0	71	86	0	197	35	22	17	25	1.95
6112938--6113013	37	2.1	37	87	5	109	44	11	21	22	1.84
6112945--6113034	37	2.5	35	82	8	94	44	10	25	20	1.82
6116042--6116256	34	6.7	34	83	10	267	40	5	6	48	1.50
6117296--6117326	16	1.9	16	93	0	53	74	0	3	22	0.96
6117314--6117361	19	2.6	18	83	6	60	60	0	4	35	1.16
6117369--6117413	5	9.0	5	100	0	90	40	0	0	60	0.97
6118399--6118442	21	2.2	20	83	4	52	54	2	0	43	1.12
6118724--6118762	17	2.2	18	86	4	53	51	7	2	38	1.44
6119080--6119144	20	3.3	20	85	4	80	1	29	0	69	0.98
6119086--6119151	12	5.9	12	73	22	56	1	28	0	69	0.97
6119186--6119216	2	15.5	2	100	0	62	51	0	0	48	1.00
6120735--6120781	23	2.0	23	91	0	76	34	4	27	34	1.77
6121189--6121273	42	2.0	42	97	0	161	47	15	4	32	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6134666--6134716	17	2.9	17	77	8	50	66	0	0	33	0.92
6135121--6135173	7	7.6	7	100	0	106	0	26	0	73	0.83
6136651--6136724	31	2.4	32	90	4	116	24	27	13	35	1.93
6138034--6138110	31	2.5	30	79	8	82	28	22	11	37	1.89
6139720--6139752	9	3.7	9	95	0	57	39	3	33	24	1.71
6141533--6141565	2	16.5	2	100	0	66	0	48	0	51	1.00
6142712--6142739	14	2.0	14	100	0	56	0	35	0	64	0.94
6146673--6146747	3	25.3	3	84	8	100	65	4	0	30	1.11
6157179--6157285	24	4.5	24	75	0	106	47	16	14	20	1.82
6157179--6157287	48	2.3	48	78	0	128	47	16	15	20	1.82
6159742--6159773	7	4.4	7	92	7	55	25	28	34	12	1.92
6159743--6159789	8	6.5	8	79	20	59	21	25	38	14	1.92
6159743--6159789	15	3.3	15	91	5	71	21	25	38	14	1.92
6159750--6159794	13	3.3	13	90	6	63	17	24	42	15	1.88
6159771--6159833	18	3.6	18	89	2	101	11	17	52	19	1.74
6161980--6162045	25	2.7	24	83	2	87	46	16	15	21	1.83
6161979--6162046	12	5.5	13	76	10	54	47	16	14	22	1.82
6164473--6164504	7	4.4	7	92	7	55	25	28	34	12	1.92
6164474--6164520	8	6.5	8	79	20	59	21	25	38	14	1.92
6164474--6164520	15	3.3	15	91	5	71	21	25	38	14	1.92
6164481--6164525	13	3.3	13	90	6	63	17	24	42	15	1.88
6164502--6164565	18	3.6	18	91	0	110	10	18	51	18	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6165630--6165680	26	2.0	26	81	11	61	49	1	0	49	1.12
6165912--6165972	20	3.0	21	77	15	56	22	4	4	67	1.30
6165918--6165972	11	5.4	10	79	12	58	21	3	5	69	1.25
6170913--6171022	24	4.6	24	76	10	102	47	17	15	20	1.83
6170917--6171008	12	7.8	12	71	16	66	47	18	15	18	1.82
6170915--6171005	47	1.9	48	84	10	125	48	17	15	18	1.82
6172106--6172140	18	1.9	18	88	0	52	28	17	0	54	1.43
6175226--6175476	104	2.4	104	83	1	322	31	17	15	35	1.91
6182503--6182541	20	1.9	21	85	15	55	46	2	7	43	1.46
6189575--6189611	19	1.9	19	88	0	56	32	27	16	24	1.96
6189641--6189700	20	3.0	20	71	9	59	30	23	20	26	1.98
6189875--6189924	22	2.3	22	85	0	64	24	42	12	22	1.87
6190300--6190343	20	2.2	20	87	0	61	11	18	20	50	1.77
6190835--6190886	20	2.6	20	84	6	70	44	26	19	9	1.81
6190880--6190922	20	2.2	20	83	4	52	25	20	25	27	1.99
6190931--6190985	20	2.8	20	91	0	83	32	18	16	32	1.93
6191156--6191190	18	1.9	18	94	0	61	17	2	25	54	1.57
6193450--6193503	24	2.2	24	93	0	90	40	20	18	20	1.91
6193450--6193517	24	2.8	24	84	0	64	38	20	17	23	1.93
6194731--6194805	31	2.4	31	86	2	96	44	4	1	50	1.29
6199174--6199220	21	2.2	20	79	17	51	61	10	0	27	1.29
6199207--6199245	20	2.0	20	84	0	51	66	10	0	23	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6210673--6210748	35	2.2	35	87	0	107	39	21	1	38	1.62
6211124--6211370	130	1.9	129	89	0	386	37	14	12	35	1.84
6211827--6211863	15	2.4	16	86	13	51	59	5	2	32	1.34
6213845--6213890	5	9.2	5	100	0	92	0	60	19	19	1.36
6216002--6216048	17	2.9	16	78	9	60	42	0	0	57	0.98
6222235--6222402	59	2.9	58	83	5	187	31	22	4	41	1.74
6224006--6224054	21	2.3	21	89	0	80	59	8	12	20	1.58
6226245--6226283	11	3.2	12	82	10	53	69	0	25	5	1.09
6233702--6233758	29	2.0	29	92	0	96	15	33	29	21	1.94
6233826--6233881	29	1.9	29	96	0	103	12	37	30	19	1.89
6233980--6234035	29	1.9	29	85	7	78	25	26	33	14	1.94
6237016--6237097	21	4.0	20	70	12	67	24	24	18	32	1.97
6237087--6237138	21	2.5	21	87	3	70	38	17	23	21	1.93
6237072--6237321	41	6.1	41	73	6	186	34	19	19	27	1.96
6237158--6237214	20	2.8	21	78	5	71	21	21	15	42	1.89
6237210--6237341	20	6.6	20	85	3	167	38	20	19	21	1.93
6237551--6237603	27	1.9	27	84	3	70	39	32	7	20	1.81
6237898--6237939	19	2.2	19	86	0	57	50	26	14	9	1.73
6237955--6238064	20	5.9	19	76	14	104	13	22	20	43	1.86
6240211--6240271	21	3.0	20	71	7	59	22	37	19	19	1.94
6241622--6241657	14	2.6	14	95	0	63	30	0	25	44	1.54
6241764--6241874	19	6.4	19	71	21	91	47	19	18	14	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6241764--6241857	33	2.8	33	91	0	152	46	19	19	14	1.84
6241846--6241891	19	2.4	19	92	0	74	47	26	13	13	1.78
6241894--6242017	33	3.8	33	90	6	198	13	22	17	45	1.84
6241894--6242037	19	8.3	19	70	22	102	15	22	18	44	1.86
6242011--6242083	20	3.6	20	67	17	51	26	16	23	34	1.95
6245028--6245117	42	2.2	42	81	2	110	24	15	37	22	1.93
6245457--6245529	20	3.7	20	90	0	74	34	27	16	21	1.95
6245463--6245544	40	2.0	40	86	4	112	35	26	19	18	1.95
6245483--6245569	20	4.4	20	88	1	122	39	24	21	14	1.91
6245558--6245616	14	3.9	14	76	20	55	49	22	16	11	1.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29