genome.fa.s9175.2.7.7.80.10.50.1000.28.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  28  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)
5598386--5598505	61	2.0	61	86	3	170	31	21	11	35	1.90
5598751--5599362	136	4.5	136	87	3	844	34	16	22	26	1.95
5598751--5599362	271	2.3	271	89	2	937	34	16	22	26	1.95
5599300--5599554	91	2.8	90	94	2	431	40	12	21	25	1.88
5599727--5599764	3	12.7	3	100	0	76	34	0	0	65	0.93
5600309--5600351	21	2.1	21	87	12	63	34	23	20	20	1.96
5600660--5600688	2	15.0	2	92	7	51	48	0	0	51	1.00
5602351--5602381	15	2.1	15	93	0	53	48	16	19	16	1.81
5604163--5604205	7	6.3	7	82	15	54	16	0	34	48	1.46
5604170--5604207	20	1.9	20	100	0	76	18	0	34	47	1.49
5604257--5604290	14	2.4	14	85	0	50	29	2	20	47	1.65
5605000--5605041	12	3.2	13	80	10	50	26	2	0	71	0.98
5614063--5614104	22	1.9	22	90	0	66	26	26	21	26	1.99
5614652--5614692	20	2.0	20	85	0	55	19	24	24	31	1.98
5616135--5616199	33	1.9	33	84	3	85	21	18	3	56	1.54
5625536--5625613	35	2.3	35	82	4	97	58	3	12	24	1.51
5625586--5625636	23	2.3	23	86	3	68	49	11	7	31	1.68
5627360--5627393	17	2.0	17	88	0	50	23	0	2	73	0.97
5632839--5632887	26	1.9	26	83	4	64	38	6	4	51	1.46
5632913--5632948	14	2.5	14	95	4	63	52	0	0	47	1.00
5633354--5633393	19	2.1	19	95	0	71	50	5	5	40	1.46
5636912--5636996	35	2.4	35	94	0	152	32	28	9	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5646371--5646473	52	2.0	52	98	0	197	41	13	23	21	1.88
5655183--5655233	9	5.6	9	79	11	50	33	5	3	56	1.42
5656031--5656076	21	2.2	21	84	0	56	50	0	41	8	1.33
5660451--5660477	4	6.8	4	100	0	54	77	0	0	22	0.76
5662244--5662378	64	2.1	64	82	8	157	28	13	14	42	1.84
5662428--5662508	35	2.5	31	77	14	99	35	14	14	34	1.88
5662444--5662548	35	2.9	35	83	5	129	38	11	15	35	1.83
5662568--5662640	29	2.5	29	81	2	83	27	13	13	45	1.82
5663192--5663247	3	18.7	3	85	7	78	32	0	0	67	0.91
5663890--5664153	132	2.0	132	99	0	519	37	12	21	28	1.90
5681060--5681106	16	2.9	16	77	17	53	36	10	0	53	1.36
5689517--5689557	16	2.7	15	88	7	57	19	12	24	43	1.85
5689527--5689561	16	2.2	16	100	0	70	17	14	25	42	1.86
5694507--5694559	16	3.3	16	83	0	70	60	22	7	9	1.53
5694496--5694559	32	2.1	30	88	5	92	60	20	7	10	1.54
5694500--5694557	10	5.6	10	76	15	55	60	22	8	8	1.53
5694756--5694835	23	3.4	23	87	5	99	25	21	25	28	1.99
5694794--5694848	12	4.7	12	76	13	60	14	23	27	34	1.94
5695726--5695757	14	2.3	14	94	0	55	50	25	15	9	1.74
5695706--5695756	24	2.1	24	85	7	68	54	19	11	13	1.69
5698776--5698818	23	1.9	22	90	4	68	16	9	4	69	1.31
5703381--5703423	23	1.9	22	90	4	68	13	11	4	69	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5706037--5706066	15	2.0	15	93	0	51	20	36	13	30	1.90
5706123--5706163	21	2.0	21	90	0	64	17	24	19	39	1.92
5709286--5709349	23	2.8	22	76	6	74	34	23	25	17	1.96
5709740--5709783	2	22.0	2	100	0	88	50	0	0	50	1.00
5709860--5709922	2	33.0	2	90	9	105	49	0	0	50	1.00
5714569--5714633	23	2.8	23	78	0	76	38	24	18	18	1.93
5715103--5715145	2	21.5	2	100	0	86	51	0	0	48	1.00
5716241--5716401	64	2.5	63	81	10	179	24	23	20	31	1.98
5719805--5719864	23	2.6	23	83	0	84	33	25	25	16	1.96
5720260--5720287	2	14.0	2	100	0	56	50	0	0	50	1.00
5720346--5720397	2	26.0	2	100	0	104	50	0	0	50	1.00
5721065--5721102	20	1.9	19	89	5	58	36	10	2	50	1.51
5721495--5721656	64	2.5	64	81	2	182	24	23	19	32	1.97
5722945--5722981	19	1.9	19	100	0	74	40	16	5	37	1.71
5726931--5727724	274	2.9	271	81	4	900	25	19	15	40	1.90
5728316--5728365	19	2.6	19	78	6	57	38	2	2	58	1.21
5728485--5728542	28	2.0	28	86	10	80	43	0	1	55	1.10
5738286--5738344	6	9.8	6	79	17	61	1	16	0	81	0.78
5738286--5738345	17	3.4	17	77	11	66	1	16	0	81	0.77
5738383--5738414	7	4.7	7	92	7	57	0	12	0	87	0.54
5738317--5738448	69	1.9	70	81	7	162	12	21	9	56	1.64
5744684--5744721	19	1.9	20	89	10	60	71	5	7	15	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5748003--5748080	29	2.7	29	84	5	88	76	10	1	11	1.07
5748003--5748085	14	5.8	15	74	20	63	77	9	1	12	1.06
5748025--5748079	7	7.7	7	78	11	58	76	12	1	9	1.10
5748025--5748080	15	3.9	15	78	19	57	76	12	1	8	1.08
5748025--5748079	13	3.9	14	79	13	58	76	12	1	9	1.10
5748017--5748080	7	8.5	8	77	18	50	76	12	1	9	1.08
5748151--5748216	34	1.9	34	100	0	132	43	21	9	25	1.81
5750517--5750608	33	2.8	33	89	0	139	50	19	1	29	1.55
5752409--5752446	13	2.9	13	96	0	67	23	13	0	63	1.30
5752454--5752585	36	3.7	36	91	4	223	34	15	10	39	1.82
5753384--5753462	34	2.3	34	95	0	140	51	7	13	26	1.68
5754581--5754610	14	2.1	14	93	0	51	43	3	26	26	1.70
5755192--5755216	2	12.5	2	100	0	50	52	0	0	48	1.00
5757637--5757725	2	44.5	2	97	0	160	50	2	0	47	1.13
5758811--5758851	14	2.9	15	82	7	50	56	0	2	41	1.13
5761203--5761256	25	2.2	24	77	9	56	35	1	3	59	1.26
5761208--5761558	183	1.9	183	87	8	514	44	4	8	42	1.55
5763247--5763302	26	2.1	26	86	6	76	42	0	3	53	1.18
5763505--5763565	31	2.0	31	83	3	79	47	1	1	49	1.21
5764088--5764132	22	2.1	21	83	4	54	46	11	2	40	1.52
5764103--5764212	30	3.6	30	81	1	103	40	10	9	40	1.70
5764135--5764224	30	3.0	30	81	0	99	36	10	7	45	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5772669--5772733	29	2.2	29	86	5	87	12	15	18	53	1.72
5772734--5772768	6	5.7	6	96	3	61	0	48	0	51	1.00
5772773--5772821	20	2.5	20	86	0	71	46	20	8	24	1.77
5773304--5773337	17	1.9	17	88	5	50	52	0	47	0	1.00
5793557--5793621	33	2.0	31	82	11	78	53	24	0	21	1.46
5795562--5795620	20	2.9	21	87	2	84	13	23	33	28	1.93
5799103--5799142	21	1.9	21	85	10	55	35	10	2	52	1.48
5812271--5812409	39	3.6	39	82	4	165	17	29	20	32	1.96
5818995--5819103	39	2.8	39	78	8	105	18	23	22	35	1.95
5821257--5821299	2	22.0	2	95	4	79	51	0	0	48	1.00
5822373--5822421	19	2.6	19	90	0	71	38	18	22	20	1.93
5825343--5825455	11	9.6	11	66	16	57	24	24	24	25	2.00
5825377--5825444	13	5.5	13	70	19	65	19	27	27	25	1.98
5825343--5825456	24	4.8	24	91	1	158	24	25	24	25	2.00
5834646--5835236	55	10.9	55	82	5	668	30	18	22	28	1.97
5840044--5840203	30	5.4	29	73	11	105	55	7	15	21	1.64
5843406--5843466	29	2.1	29	87	3	88	26	18	6	49	1.71
5846569--5846602	16	2.1	16	88	0	50	64	0	2	32	1.08
5848735--5849183	229	2.0	227	95	0	799	45	8	7	39	1.62
5849249--5849294	20	2.3	19	89	10	74	54	10	17	17	1.70
5851769--5851829	32	1.9	32	86	0	86	29	1	44	24	1.63
5853619--5853666	18	2.6	19	86	6	71	31	2	10	56	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5853785--5855347	199	7.9	199	96	1	2892	36	15	16	31	1.90
5853785--5855347	592	2.6	593	97	1	2909	36	15	16	31	1.90
5853785--5855347	395	3.9	396	96	1	2870	36	15	16	31	1.90
5855802--5855865	23	2.8	23	87	0	92	35	6	20	37	1.78
5855802--5855874	23	3.2	23	82	7	85	34	5	20	39	1.76
5856143--5856193	25	2.0	25	92	0	84	33	7	19	39	1.81
5856442--5856478	18	2.1	18	89	0	56	32	5	10	51	1.60
5856735--5856859	39	3.2	39	96	1	225	48	20	13	17	1.81
5857263--5857326	23	2.8	23	87	0	92	35	6	20	37	1.78
5857263--5857335	23	3.2	23	82	7	85	34	5	20	39	1.76

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