genome.fa.s7926.2.7.7.80.10.50.1000.18.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  18  of  42  ( 5024 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)
3660690--3660723	16	2.1	16	94	0	59	32	8	26	32	1.87
3664769--3664852	37	2.3	38	87	6	120	33	4	19	42	1.72
3670733--3670810	23	3.3	23	89	1	111	16	24	25	33	1.96
3674891--3674929	20	1.9	21	89	5	62	51	7	2	38	1.44
3677295--3677353	30	2.0	30	83	9	77	57	1	11	28	1.44
3680487--3680518	16	2.0	16	100	0	64	37	18	12	31	1.88
3687730--3687770	20	2.0	21	85	4	57	58	2	2	36	1.24
3689137--3689177	14	2.9	15	89	7	59	36	0	2	60	1.10
3689173--3689232	3	20.0	3	96	0	111	65	0	1	33	1.03
3698459--3698483	2	12.5	2	100	0	50	52	0	0	48	1.00
3698684--3698762	29	2.6	30	88	8	115	49	3	3	43	1.38
3709645--3709723	22	3.6	22	96	0	140	26	32	27	12	1.93
3720276--3720840	174	3.3	171	84	4	701	36	16	20	26	1.94
3728452--3728491	21	1.9	22	90	10	66	25	30	30	15	1.95
3733559--3733633	38	2.0	38	97	0	141	37	5	5	52	1.47
3747008--3747116	24	4.5	24	81	4	130	48	17	13	20	1.80
3747010--3747079	12	5.8	12	73	6	52	51	18	11	18	1.75
3747008--3747116	48	2.3	48	86	0	146	48	17	13	20	1.80
3748917--3748954	16	2.4	16	100	0	76	28	26	5	39	1.78
3749338--3749378	14	2.8	15	88	3	57	19	21	34	24	1.97
3749325--3749378	14	3.9	14	82	4	56	20	22	33	24	1.97
3751470--3751568	24	4.1	24	80	5	110	49	18	11	21	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3751470--3751578	48	2.3	48	83	0	128	48	17	13	20	1.80
3753464--3753510	20	2.3	20	88	0	76	48	14	19	17	1.81
3753636--3753704	23	3.0	23	82	0	84	30	18	27	23	1.98
3753696--3753735	13	3.0	13	85	3	53	22	17	30	30	1.97
3761857--3761916	29	2.1	29	100	0	120	38	10	15	36	1.80
3761857--3761905	15	3.3	15	69	25	50	40	8	14	36	1.75
3777559--3777597	19	2.1	19	85	9	53	64	2	12	20	1.40
3787234--3787328	24	4.0	24	75	2	84	47	16	14	21	1.82
3791708--3791802	24	4.0	24	67	0	64	46	16	11	25	1.81
3793620--3793676	24	2.4	23	80	13	62	78	1	5	14	0.99
3793641--3793707	9	7.7	9	69	12	50	73	2	4	19	1.14
3793830--3793910	36	2.2	36	79	14	87	64	2	3	29	1.24
3793902--3793951	2	25.0	2	100	0	100	50	0	0	50	1.00
3795190--3795386	36	5.6	36	75	11	194	38	12	21	27	1.90
3795190--3795373	101	1.8	102	86	1	271	38	11	21	27	1.89
3795451--3795523	37	2.0	37	88	0	110	42	13	16	27	1.86
3795462--3795537	37	2.1	37	85	2	100	46	13	15	25	1.82
3795424--3795663	102	2.4	102	91	1	374	36	11	17	33	1.87
3795575--3795749	87	2.0	86	91	3	280	36	11	18	33	1.87
3795659--3795879	101	2.2	102	81	4	250	40	13	18	28	1.87
3795470--3795854	188	2.0	189	85	3	508	38	11	18	31	1.87
3796881--3796975	32	2.9	32	90	1	145	37	21	11	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3797903--3798033	69	1.9	69	95	3	237	25	14	23	36	1.93
3798104--3798179	13	5.8	13	81	17	86	2	19	3	73	1.11
3798103--3798181	27	3.0	27	94	3	135	3	18	3	73	1.14
3801370--3801438	9	7.7	9	73	12	61	73	4	4	17	1.15
3806632--3806676	15	3.0	15	93	0	72	51	0	0	48	1.00
3806664--3806717	22	2.5	22	96	0	99	38	0	11	50	1.38
3806701--3806803	32	3.5	31	75	24	125	35	0	11	52	1.38
3806675--3807307	54	12.0	54	79	13	696	34	0	12	52	1.41
3806774--3806821	22	2.4	18	73	23	51	33	0	14	52	1.42
3806751--3807292	80	6.9	79	79	15	599	33	0	13	52	1.42
3806830--3807195	32	11.7	32	68	24	205	34	0	12	52	1.42
3806935--3807030	22	4.0	22	73	21	93	35	0	13	51	1.42
3807089--3807131	22	2.0	22	95	0	77	32	2	13	51	1.54
3807132--3807191	18	3.6	18	71	17	65	31	0	11	56	1.35
3807220--3807270	14	3.1	17	70	18	54	33	0	11	54	1.37
3807255--3807297	22	2.0	22	95	0	77	37	0	11	51	1.39
3807322--3807380	31	1.9	31	92	0	100	42	10	6	40	1.65
3812450--3812532	29	2.8	29	92	1	139	43	9	14	32	1.78
3817211--3817293	29	2.8	29	92	1	139	43	9	14	32	1.78
3818326--3818380	22	2.4	23	79	11	60	41	0	0	58	0.98
3818310--3818367	26	2.2	25	82	11	64	46	0	0	53	1.00
3820850--3820889	21	1.9	21	89	0	62	45	15	5	35	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3821022--3821072	13	3.5	14	75	15	50	66	0	0	33	0.92
3822193--3822311	64	1.9	62	87	3	175	35	21	17	25	1.95
3822198--3822352	62	2.5	63	81	6	154	34	23	18	23	1.96
3824108--3824153	23	2.0	23	100	0	92	34	0	34	30	1.58
3824253--3824591	114	2.9	114	85	3	435	21	10	45	23	1.82
3824689--3824928	93	2.6	93	95	0	417	20	5	44	30	1.73
3831148--3831241	49	1.9	49	82	0	116	38	5	11	44	1.64
3831375--3831455	33	2.7	30	83	12	96	48	0	1	50	1.08
3831354--3831453	28	3.4	31	77	14	95	51	0	1	48	1.07
3831354--3831525	92	1.9	89	80	11	201	48	0	2	48	1.18
3831494--3831545	23	2.3	23	86	0	68	46	1	0	51	1.12
3831718--3831758	19	2.3	18	87	8	57	56	0	0	43	0.99
3831740--3831795	23	2.3	23	84	6	67	48	0	0	51	1.00
3834792--3834838	18	2.7	18	90	3	69	38	6	25	29	1.81
3836547--3836587	16	2.5	16	88	4	55	43	2	4	48	1.37
3837505--3837544	21	2.0	21	85	5	55	60	2	2	35	1.24
3837834--3837916	41	1.9	43	86	13	118	38	13	16	31	1.87
3838053--3838085	13	2.4	14	90	5	50	33	9	0	57	1.30
3838046--3838084	20	2.0	20	90	10	62	33	10	0	56	1.33
3850067--3850412	38	9.4	37	72	15	150	41	4	7	45	1.53
3850093--3850284	38	5.1	36	80	12	167	42	4	7	46	1.51
3850093--3850304	75	2.8	71	81	11	217	42	4	7	46	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3850143--3850304	38	4.3	39	80	11	153	42	4	7	45	1.51
3855476--3855722	43	5.4	43	67	14	161	32	26	20	20	1.97
3855773--3856587	106	7.7	106	95	0	1351	33	24	18	23	1.97
3855457--3856596	212	5.5	212	88	5	1711	33	25	18	23	1.97
3855457--3856596	318	3.7	317	88	5	1705	33	25	18	23	1.97
3856724--3856926	81	2.5	81	87	3	284	30	23	22	24	1.99
3857560--3857864	38	8.4	37	72	15	162	41	3	7	47	1.48
3857546--3857699	74	2.1	73	85	6	202	42	4	6	46	1.50
3857546--3857757	75	2.8	71	79	11	208	41	3	7	47	1.49
3857876--3857901	5	5.2	5	100	0	52	19	0	0	80	0.71
3857933--3857964	12	2.7	12	90	0	55	37	25	28	9	1.87
3872328--3872368	16	2.6	16	96	3	75	60	0	4	34	1.18
3879596--3879624	12	2.4	12	100	0	58	10	10	44	34	1.73
3881355--3881403	2	24.5	2	100	0	98	51	0	0	48	1.00
3884669--3884708	21	1.9	21	84	0	53	42	40	0	17	1.49
3886552--3886613	31	2.0	31	93	3	108	38	9	14	37	1.79
3891595--3891644	24	2.1	24	82	14	59	50	4	24	22	1.66
3892615--3892672	19	3.1	19	89	0	89	24	5	25	44	1.74
3893776--3893926	36	4.2	36	91	0	221	33	23	23	19	1.97
3893776--3893950	36	4.9	35	87	4	181	34	22	22	20	1.96
3894096--3894134	19	2.1	19	95	0	69	23	5	28	43	1.75
3896270--3896487	103	2.1	103	93	0	373	25	14	22	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3896504--3896571	23	3.0	23	84	0	82	22	26	25	26	2.00
3897751--3897881	69	1.9	69	91	0	217	23	23	9	42	1.84
3906756--3906817	22	2.9	21	82	4	79	14	50	9	25	1.73
3907022--3907094	29	2.4	32	82	11	91	54	6	10	27	1.60
3907022--3907093	30	2.4	29	82	11	83	55	6	11	26	1.60
3907241--3907301	32	1.9	32	96	0	113	59	4	9	26	1.50
3907639--3907719	37	2.2	37	95	0	144	30	2	9	56	1.45
3907637--3907731	37	2.4	38	87	10	138	32	2	8	56	1.41
3907931--3908016	30	3.4	24	73	18	77	38	0	4	56	1.20
3924463--3924496	3	11.3	3	87	0	50	26	35	5	32	1.81

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