genome.fa.s9175.2.7.7.80.10.50.1000.25.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  25  of  51  ( 6037 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)
4947120--4947215	19	5.3	19	73	13	85	82	0	17	0	0.67
4947117--4947212	5	18.4	5	78	14	79	81	0	18	0	0.70
4947116--4947210	47	2.1	46	82	11	115	80	0	20	0	0.72
4948122--4948703	196	3.0	201	92	7	980	26	13	23	36	1.92
4948122--4948703	99	5.9	100	91	7	946	26	13	23	36	1.92
4948122--4948703	148	3.9	149	92	6	942	26	13	23	36	1.92
4949052--4950052	229	4.5	224	92	3	1525	37	13	19	28	1.91
4949051--4950049	116	9.0	112	89	5	1476	37	13	20	28	1.91
4950333--4950431	3	34.7	3	77	20	90	36	0	0	63	0.95
4950336--4950440	37	3.0	35	84	14	121	38	0	0	61	0.96
4951197--4951225	13	2.2	13	100	0	58	0	31	62	6	1.22
4951750--4951786	19	1.9	19	89	10	58	24	0	5	70	1.08
4951789--4951831	11	3.8	11	85	14	61	25	0	9	65	1.22
4951804--4951828	13	1.9	13	100	0	50	28	0	8	64	1.22
4951790--4951835	23	2.1	23	88	8	69	26	0	6	67	1.15
4961022--4961102	32	2.5	32	82	4	83	18	11	27	43	1.84
4961847--4962014	32	5.2	31	68	14	108	16	12	25	46	1.81
4961933--4962003	16	4.4	16	72	0	52	11	12	29	46	1.77
4962734--4962778	21	2.1	21	84	8	56	15	4	2	77	1.02
4962920--4962959	21	1.9	21	94	0	71	42	0	5	52	1.23
4966723--4967004	121	2.3	122	85	4	363	32	22	15	28	1.95
4966770--4967004	123	1.9	121	89	3	364	32	22	16	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4967063--4967123	8	7.6	8	84	0	77	39	31	0	29	1.57
4967045--4967123	16	4.9	16	77	9	72	40	27	0	31	1.57
4974498--4974536	3	12.7	3	84	15	53	28	0	0	71	0.86
4974502--4974536	3	11.7	3	88	11	54	28	0	0	71	0.86
4974487--4974537	12	4.0	12	79	20	59	27	0	0	72	0.85
4974590--4974672	33	2.5	33	92	5	132	36	19	14	30	1.91
4975030--4975100	2	35.5	2	100	0	142	49	0	0	50	1.00
4975116--4975149	12	2.8	12	95	0	59	17	8	5	67	1.37
4986671--4987045	106	3.5	106	82	5	457	33	23	18	23	1.97
4987790--4987863	23	3.1	23	77	13	69	36	8	1	54	1.39
4989073--4989152	40	2.1	37	86	11	108	31	5	0	63	1.15
4989210--4989251	17	2.5	17	84	11	59	19	9	4	66	1.38
4997575--4997613	19	2.1	19	100	0	78	41	15	20	23	1.90
5003244--5003278	2	17.5	2	100	0	70	51	0	0	48	1.00
5003456--5003499	13	3.4	13	93	0	70	31	15	20	31	1.94
5007412--5007524	46	2.5	46	86	2	156	47	11	7	33	1.67
5009062--5009098	16	2.3	16	100	0	74	35	37	16	10	1.83
5018849--5019005	28	5.6	28	92	0	242	36	27	13	22	1.91
5019053--5019103	21	2.4	21	80	6	59	37	19	15	27	1.92
5019220--5019249	15	2.0	15	93	0	51	26	23	6	43	1.78
5021330--5021364	18	1.9	18	88	11	54	25	22	5	45	1.74
5022577--5022610	16	2.1	17	88	5	52	44	17	0	38	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5023316--5023356	21	2.0	21	85	0	55	36	17	14	31	1.90
5028394--5028554	82	2.0	82	81	7	193	36	9	27	26	1.88
5033804--5033848	2	22.5	2	100	0	90	51	0	0	48	1.00
5034062--5034147	43	2.0	43	95	0	154	41	6	12	38	1.70
5037365--5037415	23	2.3	23	80	6	61	45	3	1	49	1.32
5057228--5057283	18	3.1	18	81	0	67	17	44	19	17	1.87
5057270--5057314	8	5.5	8	84	10	56	13	35	24	26	1.92
5057273--5057306	15	2.3	15	94	0	59	11	35	23	29	1.90
5062418--5062453	18	2.0	18	94	0	63	19	50	19	11	1.77
5062440--5062484	8	5.5	8	86	10	56	15	35	24	24	1.94
5062446--5062476	15	2.1	15	100	0	62	12	32	25	29	1.93
5063762--5063796	18	1.9	18	88	0	52	54	0	17	28	1.43
5069647--5069707	27	2.4	24	71	17	61	50	1	3	44	1.28
5071905--5071958	22	2.3	23	75	6	56	59	5	5	29	1.43
5073059--5073102	22	2.0	21	83	12	54	61	2	0	36	1.09
5078797--5078859	31	2.0	31	87	0	90	23	11	14	50	1.74
5079641--5079707	23	3.1	23	65	30	65	44	11	7	35	1.70
5079757--5079830	31	2.4	31	88	0	103	55	13	12	18	1.69
5080475--5080524	20	2.5	20	90	6	75	32	16	18	34	1.92
5083077--5083129	20	2.7	20	85	2	81	39	15	13	32	1.85
5083976--5084035	3	20.3	3	81	13	63	33	0	1	65	1.03
5083974--5084041	32	2.1	32	84	10	86	30	0	1	67	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5084076--5084521	37	12.4	36	80	13	404	44	5	5	44	1.48
5084197--5084519	99	3.1	98	79	15	364	45	4	4	45	1.45
5084123--5084443	172	1.8	175	86	7	476	44	4	5	45	1.49
5084273--5084324	25	2.1	25	96	0	95	40	3	9	46	1.55
5084296--5084544	36	6.8	36	79	11	247	43	4	4	46	1.44
5084551--5084602	3	18.0	3	78	21	58	28	0	0	71	0.87
5084551--5084602	5	9.0	6	84	16	58	28	0	0	71	0.87
5084557--5084601	14	3.1	14	90	6	63	26	0	0	73	0.84
5085590--5085637	11	4.8	11	76	21	52	27	0	2	70	0.98
5085595--5085630	18	2.0	18	94	0	63	27	0	2	69	1.02
5085626--5085677	20	2.6	21	81	9	72	23	9	9	57	1.60
5085762--5085842	3	29.0	3	71	16	50	28	2	0	69	1.02
5085756--5085822	14	4.7	15	74	18	56	23	2	0	73	0.97
5086198--5086256	2	29.5	2	100	0	118	50	0	0	49	1.00
5086601--5086644	21	2.1	22	87	8	65	45	18	4	31	1.69
5091113--5091157	22	2.1	21	87	4	63	46	17	2	33	1.61
5091117--5091164	22	2.2	22	81	7	53	50	18	2	29	1.59
5094943--5095039	21	5.3	21	64	31	78	18	9	7	64	1.45
5094932--5095041	35	3.1	35	100	0	220	17	8	8	66	1.42
5097060--5097288	124	1.9	123	86	4	327	36	11	17	35	1.85
5100143--5100877	84	8.7	84	82	1	756	24	18	24	33	1.97
5100169--5100877	252	2.8	251	83	1	896	24	18	24	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5100879--5101244	124	3.0	122	89	5	556	25	16	26	31	1.97
5102427--5102686	95	2.7	94	86	7	326	32	18	15	33	1.92
5110594--5110631	14	2.6	15	87	4	51	57	0	0	42	0.98
5110020--5111265	573	2.2	570	80	7	1351	38	12	9	39	1.75
5112805--5112901	13	7.5	13	75	17	78	28	18	18	34	1.95
5112805--5112908	26	4.0	26	84	0	109	28	19	17	34	1.94
5112805--5112908	39	2.7	39	90	3	156	28	19	17	34	1.94
5112905--5113093	85	2.2	85	85	5	249	30	20	16	32	1.95
5116967--5117008	15	2.8	15	88	0	57	19	14	7	59	1.57
5116982--5117017	15	2.4	15	90	0	54	16	19	8	55	1.66
5119546--5119590	20	2.2	21	92	4	74	31	11	0	57	1.33
5122330--5122368	15	2.6	14	88	8	51	2	15	5	76	1.06
5122542--5122600	21	2.8	21	89	0	82	40	10	18	30	1.84
5122863--5122904	22	2.0	21	86	13	61	38	0	35	26	1.57
5122863--5122912	20	2.3	21	80	13	57	38	0	36	26	1.57
5135722--5135803	42	2.0	42	92	0	137	46	13	13	26	1.80
5153583--5153614	2	16.0	2	100	0	64	50	0	0	50	1.00
5159150--5159204	24	2.3	24	90	0	83	61	14	14	9	1.55
5159192--5159231	10	4.0	10	84	12	55	87	0	12	0	0.54
5159192--5159222	11	2.9	11	95	4	55	90	0	9	0	0.46
5159194--5159231	16	2.5	15	83	8	51	86	0	13	0	0.56
5164338--5164401	21	3.1	21	67	13	60	32	14	34	18	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5165673--5165720	23	2.3	21	86	13	64	58	4	0	37	1.18
5165718--5165756	20	1.9	20	89	5	60	56	2	2	38	1.27
5165652--5165756	23	5.2	20	75	12	63	58	2	1	37	1.24
5166420--5166467	19	2.5	19	82	3	51	47	0	0	52	1.00
5167078--5167103	6	4.3	6	100	0	52	0	80	0	19	0.71
5174800--5174837	15	2.7	15	88	8	53	23	0	7	68	1.16
5174798--5174857	14	4.3	14	75	21	54	25	1	8	65	1.30
5183845--5183882	19	2.0	19	100	0	76	26	5	26	42	1.76
5186594--5186812	7	29.0	8	74	16	159	73	0	15	11	1.10
5186588--5186833	30	8.4	30	75	15	160	73	0	15	10	1.08

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   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51