genome.fa.s8087.2.7.7.80.10.50.1000.11.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  11  of  37  ( 4336 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)
2435152--2435178	9	3.0	9	100	0	54	88	0	0	11	0.50
2435346--2435435	28	3.3	28	72	7	78	50	1	1	47	1.15
2435375--2435443	30	2.3	31	82	9	81	49	0	1	49	1.09
2436490--2436542	21	2.5	21	96	0	97	41	9	13	35	1.76
2436847--2437253	87	4.7	87	92	1	615	34	13	9	42	1.77
2436917--2436961	23	2.0	23	86	0	63	40	17	6	35	1.76
2436994--2437045	23	2.3	23	93	0	86	32	21	7	38	1.82
2437079--2437139	23	2.7	23	86	0	77	34	13	8	44	1.73
2436847--2437253	172	2.3	173	90	2	629	34	13	9	42	1.77
2437166--2437220	23	2.4	23	93	0	92	40	18	7	34	1.78
2438634--2438973	163	2.1	162	90	1	529	40	17	14	27	1.88
2445231--2445274	22	2.0	22	100	0	88	59	0	4	36	1.18
2445921--2445973	27	2.0	27	88	0	79	24	16	24	33	1.96
2446097--2446142	19	2.3	20	82	14	60	45	6	0	47	1.28
2450756--2450813	29	2.0	29	93	0	98	15	36	31	17	1.91
2451035--2451118	29	2.9	29	83	0	96	13	29	39	17	1.88
2452189--2452245	24	2.3	24	78	6	60	63	0	1	35	1.05
2455847--2456054	105	2.0	105	85	0	281	39	22	13	25	1.90
2456196--2456359	53	3.1	53	62	16	122	34	20	7	37	1.82
2456197--2456410	106	2.0	106	96	0	392	33	21	7	37	1.81
2463466--2463548	21	3.9	21	78	7	87	21	36	25	16	1.94
2467266--2467345	22	3.7	22	91	3	126	18	28	23	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2468108--2468250	64	2.2	63	84	8	182	33	19	22	24	1.97
2468750--2468780	14	2.3	14	94	5	55	35	3	25	35	1.72
2473663--2473722	27	2.3	27	80	8	63	40	3	3	53	1.34
2474705--2474826	35	3.3	35	68	22	97	55	10	2	31	1.47
2474957--2475020	30	2.1	30	94	0	110	50	17	18	14	1.79
2479154--2479193	2	20.5	2	94	5	73	50	0	0	50	1.00
2479488--2479514	2	13.5	2	100	0	54	51	0	0	48	1.00
2484849--2484910	2	30.5	2	93	3	88	50	0	6	43	1.28
2494732--2494824	42	2.2	43	79	9	102	25	15	21	37	1.92
2495948--2495992	23	2.0	23	95	0	81	31	26	26	15	1.96
2498155--2498435	41	6.8	41	82	2	323	27	19	18	33	1.96
2498165--2498425	123	2.1	125	86	4	359	28	20	18	33	1.96
2500286--2500416	66	2.0	66	89	0	199	21	12	25	40	1.89
2505239--2505283	21	2.1	21	95	0	81	40	0	0	60	0.97
2509310--2509336	12	2.2	12	100	0	54	77	0	0	22	0.76
2510083--2510110	2	14.0	2	100	0	56	50	0	0	50	1.00
2512367--2512392	13	2.0	13	100	0	52	23	0	0	76	0.78
2512723--2512758	2	18.0	2	100	0	72	50	0	0	50	1.00
2514799--2514842	20	2.3	19	81	11	54	47	6	22	22	1.75
2514989--2515059	37	1.9	37	85	5	99	47	4	0	47	1.21
2516792--2516818	2	13.5	2	100	0	54	48	0	0	51	1.00
2543618--2543650	6	5.5	6	100	0	66	45	18	0	36	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2548521--2548555	18	1.9	18	88	11	54	62	2	20	14	1.43
2550649--2551121	181	2.6	182	89	2	675	42	14	16	27	1.86
2553308--2553372	21	3.1	21	93	0	103	41	10	30	16	1.83
2553406--2553471	33	2.0	33	90	0	105	28	0	48	22	1.51
2555407--2555479	23	3.2	23	90	0	110	34	5	20	39	1.76
2561652--2561685	2	17.0	2	100	0	68	50	0	0	50	1.00
2570441--2570508	2	34.0	2	100	0	136	50	0	0	50	1.00
2575256--2575300	22	2.0	22	86	4	63	28	31	26	13	1.94
2576103--2576227	31	4.0	31	93	2	198	20	18	23	37	1.94
2576696--2576738	21	2.0	21	82	8	52	32	4	13	48	1.63
2578339--2578368	2	15.0	2	100	0	60	50	0	0	50	1.00
2578851--2578910	33	1.9	32	83	10	79	13	56	8	21	1.63
2578906--2579048	30	4.8	30	78	0	115	13	61	8	16	1.55
2578889--2579006	15	7.9	15	69	3	67	9	63	8	18	1.49
2578909--2579033	60	2.1	60	83	3	153	10	62	8	18	1.52
2578909--2579048	60	2.3	60	81	4	140	12	61	8	17	1.55
2585765--2585794	12	2.5	12	94	0	51	46	0	0	53	1.00
2587309--2587372	33	1.9	33	93	0	110	31	17	15	35	1.91
2597812--2597860	23	2.1	23	88	0	71	51	16	18	14	1.77
2598660--2598722	6	10.5	6	73	13	58	50	1	0	47	1.10
2598667--2598707	14	3.1	14	79	13	50	51	0	0	48	1.00
2604117--2604568	228	2.0	224	89	2	690	24	11	17	47	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2608277--2608316	21	1.9	21	89	0	62	32	0	10	57	1.32
2609513--2609553	21	2.0	21	100	0	82	21	34	34	9	1.87
2612187--2612266	35	2.4	34	83	8	101	37	0	1	61	1.04
2612154--2612261	35	3.1	33	80	11	94	34	0	3	62	1.13
2614001--2614048	21	2.3	21	85	0	60	25	39	12	22	1.89
2614052--2614145	21	4.5	21	89	5	93	18	32	26	22	1.97
2614668--2614754	33	2.6	34	85	1	113	56	3	2	37	1.29
2618435--2618497	28	2.2	28	78	18	69	49	3	3	44	1.34
2624988--2625033	18	2.6	17	83	10	56	32	4	0	63	1.14
2625472--2625542	20	3.5	20	98	0	133	45	11	21	22	1.83
2629857--2629883	2	13.5	2	100	0	54	48	0	0	51	1.00
2631196--2631272	34	2.2	36	80	15	92	61	14	2	22	1.45
2633656--2633827	31	5.5	31	97	0	317	19	19	22	38	1.94
2636014--2636061	16	2.8	18	78	12	57	62	2	0	35	1.07
2641188--2641232	23	2.0	23	90	0	72	40	8	6	44	1.62
2641231--2641430	38	5.2	38	85	10	248	43	9	3	44	1.52
2641212--2641430	77	2.9	76	85	5	277	43	9	2	43	1.51
2643455--2643512	25	2.3	25	100	0	116	44	8	17	29	1.78
2657486--2657524	2	19.5	2	94	0	69	2	51	0	46	1.14
2660340--2660403	20	3.3	20	80	6	78	31	21	9	37	1.85
2660517--2660555	16	2.6	15	84	11	53	28	5	0	66	1.12
2661148--2661181	12	2.8	12	90	0	50	55	29	0	14	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2661311--2661360	24	2.1	24	92	0	82	24	18	18	40	1.91
2661535--2661568	3	11.3	3	100	0	68	64	0	35	0	0.94
2663637--2663672	18	2.0	18	94	0	63	55	25	2	16	1.55
2663921--2663961	20	2.0	20	85	0	55	48	24	12	14	1.78
2664177--2664218	20	2.1	20	86	0	57	45	21	14	19	1.85
2663837--2664343	257	2.0	258	93	0	872	35	17	14	33	1.90
2665752--2665848	21	4.6	21	88	0	131	20	17	40	21	1.92
2665993--2666034	4	10.5	4	84	0	57	69	4	0	26	1.08
2666145--2666184	21	1.9	21	94	0	71	37	27	12	22	1.90
2666257--2666299	21	2.0	21	86	0	59	37	32	13	16	1.88
2666421--2666519	42	2.4	42	81	3	119	19	17	33	30	1.94
2671075--2671114	20	2.1	19	85	4	53	50	25	15	10	1.74
2672073--2672126	18	2.9	18	78	13	65	35	0	1	62	1.06
2679048--2679087	21	1.9	21	89	0	62	65	2	0	32	1.06
2679040--2679093	16	3.2	17	77	17	51	61	1	0	37	1.07
2681330--2681366	13	2.8	13	100	0	74	21	8	0	70	1.13
2681464--2681512	2	27.0	2	80	19	63	48	0	0	51	1.00
2681464--2681510	9	4.9	9	87	12	67	48	0	0	51	1.00
2681473--2681514	11	4.0	11	87	12	70	47	0	0	52	1.00
2681719--2681767	2	24.0	2	95	4	89	48	0	2	48	1.12
2683943--2683987	23	2.0	23	82	8	56	64	0	4	31	1.13
2688819--2688848	15	2.0	15	93	0	51	50	3	13	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2689172--2689211	10	4.0	10	84	12	55	32	27	0	40	1.57
2691492--2691528	12	3.2	12	77	14	51	32	5	51	10	1.60
2692432--2692489	26	2.2	26	81	6	64	50	0	0	50	1.00
2693231--2693262	3	10.7	3	100	0	64	68	0	0	31	0.90
2701530--2701587	21	2.7	21	82	10	73	31	3	15	50	1.61
2702376--2702408	10	3.2	11	87	12	52	75	0	0	24	0.80
2703046--2703086	15	2.7	15	88	0	55	31	24	36	7	1.83
2703171--2703206	17	2.2	17	90	5	56	47	0	0	52	1.00
2703203--2703254	23	2.3	23	82	0	59	44	1	1	51	1.23
2703885--2703935	25	2.0	25	100	0	102	23	19	25	31	1.98

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