genome.fa.s8242.2.7.7.80.10.50.1000.17.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  17  of  73  ( 8740 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)
3620770--3620841	22	3.3	22	84	0	99	26	19	27	26	1.99
3621417--3621470	20	2.7	19	76	21	56	40	12	14	31	1.84
3628877--3628926	25	2.0	25	84	7	66	36	12	22	30	1.90
3633065--3633398	177	1.9	176	87	5	487	40	16	9	34	1.80
3633845--3633912	29	2.3	30	77	10	77	36	16	4	42	1.68
3633864--3633921	29	2.0	29	86	0	80	36	13	6	43	1.71
3633691--3634158	239	2.0	239	96	0	873	33	11	13	41	1.80
3636625--3637038	81	5.1	81	90	0	639	30	22	10	35	1.89
3641593--3641617	13	1.9	13	100	0	50	28	8	24	40	1.83
3668613--3668644	11	2.9	11	95	0	55	28	6	3	62	1.34
3676178--3676484	152	2.0	153	98	1	589	34	22	14	28	1.93
3678357--3678557	32	6.3	32	78	7	185	35	15	16	31	1.91
3678997--3679061	20	3.4	18	80	14	69	21	1	1	75	0.97
3679103--3679148	22	2.0	24	87	8	69	39	34	13	13	1.83
3679463--3679505	17	2.5	17	100	0	86	18	48	0	32	1.48
3687215--3687294	42	1.9	42	92	0	133	25	18	23	32	1.97
3688038--3688072	4	8.8	4	100	0	70	22	0	0	77	0.78
3688037--3688121	11	7.8	11	76	13	54	20	1	3	75	1.02
3695238--3695324	21	4.0	21	69	14	61	33	22	20	22	1.97
3695895--3695922	2	14.0	2	100	0	56	50	0	0	50	1.00
3695992--3696066	3	25.0	3	100	0	150	33	0	0	66	0.92
3700306--3700354	23	2.1	23	84	0	62	30	22	18	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3701867--3701921	20	2.6	22	77	5	60	25	25	16	32	1.96
3705479--3705523	20	2.3	20	80	3	56	46	4	2	46	1.35
3713444--3713508	34	1.9	34	84	6	87	47	7	7	36	1.61
3715135--3715255	60	2.0	59	96	1	224	36	12	11	39	1.79
3716027--3716070	19	2.3	19	84	0	52	31	11	2	54	1.48
3716035--3716071	19	1.9	19	88	0	56	32	8	2	56	1.43
3716204--3716295	23	4.0	23	79	1	94	30	19	25	25	1.98
3719551--3719593	18	2.4	18	88	0	59	69	0	9	20	1.15
3722135--3722414	131	2.1	130	85	5	361	20	17	14	48	1.81
3722464--3722502	10	3.8	10	80	6	51	74	10	5	10	1.21
3722462--3722501	21	1.9	21	100	0	80	75	10	5	10	1.19
3722484--3722513	15	2.0	15	93	0	51	70	6	10	13	1.34
3726497--3726541	18	2.5	18	82	7	56	75	0	4	20	0.97
3730422--3730508	35	2.5	34	82	12	106	54	9	8	28	1.61
3730536--3730607	26	3.0	24	68	27	62	62	4	6	26	1.39
3732768--3732808	18	2.3	18	91	4	66	63	2	4	29	1.28
3732850--3732890	10	4.1	10	90	0	64	39	0	31	29	1.57
3736924--3736967	19	2.3	19	84	0	52	31	11	2	54	1.48
3736932--3736968	19	1.9	19	88	0	56	32	8	2	56	1.43
3737101--3737169	23	2.9	24	84	2	95	28	24	26	20	1.99
3737299--3737351	15	3.5	15	84	5	61	32	18	7	41	1.79
3737302--3737358	16	3.6	16	88	2	80	29	19	8	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3737317--3737379	16	4.0	16	83	8	76	28	20	9	41	1.84
3737335--3737381	15	3.1	15	87	3	58	31	21	8	38	1.83
3737290--3737379	31	2.9	30	79	11	83	31	22	8	37	1.85
3740251--3740308	12	4.9	12	72	16	50	63	1	0	34	1.04
3740252--3740315	24	2.6	25	90	5	112	65	1	0	32	1.02
3744009--3744037	14	2.1	14	100	0	58	72	20	0	6	1.07
3745567--3745618	26	2.0	26	100	0	104	46	15	0	38	1.46
3748278--3748556	131	2.1	129	92	2	452	33	16	13	36	1.88
3748538--3748638	42	2.4	41	75	3	103	27	23	23	24	2.00
3748407--3749505	217	5.0	216	90	3	1632	31	18	16	33	1.93
3748401--3749505	433	2.5	436	90	3	1697	31	18	16	33	1.93
3749336--3749367	13	2.5	13	94	0	55	40	25	0	34	1.56
3749418--3749504	42	2.1	41	82	2	102	27	21	24	26	1.99
3749490--3749724	37	6.4	37	85	3	287	22	17	23	36	1.94
3755716--3755745	6	5.0	6	91	0	51	46	16	16	20	1.84
3756098--3756238	55	2.6	55	85	1	185	19	24	13	41	1.88
3757890--3758435	263	2.1	264	98	1	1051	50	14	7	26	1.71
3764307--3764408	20	5.1	20	79	0	87	23	8	13	53	1.67
3764307--3764495	60	3.2	59	78	3	155	24	11	13	51	1.73
3764402--3764503	20	5.1	20	79	0	96	26	13	10	49	1.75
3764402--3764486	40	2.1	40	86	4	118	23	15	10	50	1.75
3765370--3765418	20	2.5	20	89	0	71	22	8	18	51	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3767211--3767244	17	2.0	17	88	0	50	58	5	2	32	1.37
3772044--3772086	21	2.0	22	90	4	70	41	9	16	32	1.80
3779889--3780068	44	4.1	44	91	0	279	33	22	6	37	1.79
3780164--3780397	117	2.0	117	81	5	276	29	22	11	37	1.89
3780133--3780389	58	4.4	58	75	10	209	28	22	10	38	1.87
3780186--3780416	59	3.9	59	74	11	183	29	22	11	36	1.89
3785469--3785508	21	1.9	21	89	0	62	32	25	17	25	1.97
3785911--3786096	44	4.2	45	92	1	304	31	23	6	38	1.80
3786007--3786076	21	3.2	21	66	33	58	31	20	8	40	1.82
3786211--3786322	59	1.9	59	83	3	145	34	17	12	34	1.88
3786299--3786575	58	4.7	58	81	4	279	30	22	9	37	1.86
3786254--3786575	118	2.7	117	80	4	310	30	21	10	37	1.88
3786983--3787020	19	2.1	18	85	9	51	34	23	10	31	1.89
3787780--3787832	27	1.9	27	88	3	79	73	0	9	16	1.08
3788627--3789084	229	2.0	229	99	0	900	31	8	16	43	1.79
3789726--3789769	20	2.1	21	88	12	65	15	6	0	77	0.97
3796680--3796726	21	2.3	20	85	10	60	68	4	6	21	1.30
3798033--3798353	160	2.0	161	99	0	635	20	20	24	34	1.97
3798447--3798478	3	10.7	3	100	0	64	68	0	0	31	0.90
3798479--3798531	23	2.2	25	83	9	67	47	3	1	47	1.31
3798519--3798561	22	2.0	22	86	4	61	53	9	0	37	1.33
3798575--3798606	2	17.0	2	87	12	50	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3798485--3798587	37	2.7	39	78	4	111	46	6	0	45	1.36
3798574--3798602	15	1.9	15	100	0	58	55	0	0	44	0.99
3798577--3798606	13	2.3	13	100	0	60	53	0	0	46	1.00
3799574--3799604	7	4.6	7	92	8	55	64	0	0	35	0.94
3799574--3799604	13	2.3	14	94	5	55	64	0	0	35	0.94
3799741--3799833	36	2.5	37	75	16	95	67	0	3	29	1.06
3799764--3799831	21	3.2	22	74	17	63	72	0	1	26	0.94
3801794--3801833	21	1.9	21	94	0	71	42	10	22	25	1.84
3801795--3801840	21	2.2	21	88	0	65	41	15	21	21	1.90
3802089--3802643	106	5.5	106	83	10	728	23	18	24	33	1.97
3802236--3802628	94	4.1	94	88	7	597	23	17	24	34	1.96
3802132--3802643	200	2.6	200	92	0	846	23	17	25	33	1.96
3806663--3806693	7	4.6	7	92	8	55	61	0	0	38	0.96
3806664--3806692	13	2.2	13	100	0	58	58	0	0	41	0.98
3806834--3806902	33	2.2	29	82	12	84	71	0	4	24	1.05
3810046--3810084	19	2.1	19	85	0	51	35	25	12	25	1.92
3810131--3810180	21	2.4	21	86	6	66	28	20	20	32	1.97
3810169--3810279	41	2.7	41	87	2	116	31	25	20	22	1.98
3810210--3810295	20	4.2	20	84	8	120	27	27	20	23	1.99
3810189--3810263	21	3.7	20	78	10	80	30	26	21	21	1.98
3810210--3810325	61	1.9	61	83	0	151	30	24	20	25	1.99
3810465--3810559	22	4.3	22	82	5	111	24	43	12	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3810459--3810542	44	1.9	44	87	0	123	23	41	15	19	1.89
3810921--3810976	20	2.8	20	86	0	76	14	16	19	50	1.79
3810940--3810984	20	2.2	20	84	0	63	15	13	17	53	1.73
3812799--3812859	31	1.9	32	83	12	81	19	8	16	55	1.65
3812980--3813134	20	8.4	19	66	20	87	36	22	21	19	1.95
3812980--3813136	74	2.1	74	89	0	242	36	22	21	19	1.95
3813140--3813180	19	2.2	19	86	0	55	12	9	21	56	1.65
3813176--3813250	20	3.8	20	85	3	89	21	20	20	38	1.93
3813218--3813279	20	3.1	20	85	0	70	19	14	19	46	1.83
3813769--3813869	42	2.4	42	83	0	121	20	38	18	21	1.93

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73