genome.fa.s9585.2.7.7.80.10.50.1000.18.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  18  of  35  ( 4106 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)
3596052--3596363	165	1.9	164	88	3	466	31	21	20	26	1.98
3598252--3598283	15	2.1	16	94	5	57	40	6	0	53	1.26
3598374--3598406	16	2.1	16	100	0	66	51	6	0	42	1.26
3601567--3601605	9	4.2	10	93	6	57	30	0	0	69	0.89
3601574--3601605	3	10.3	3	93	6	55	31	0	0	68	0.90
3602148--3602192	18	2.5	18	85	7	56	77	11	11	0	0.99
3610239--3610279	16	2.6	16	88	3	57	36	7	21	34	1.82
3618010--3618129	64	1.9	64	84	3	161	26	16	21	35	1.95
3618160--3618208	21	2.3	21	92	0	80	24	18	26	30	1.98
3621590--3621630	21	2.0	21	85	4	57	39	19	4	36	1.73
3622544--3622592	19	2.6	19	86	0	71	32	22	14	30	1.93
3631625--3632625	6	168.5	6	95	4	1746	49	16	0	33	1.53
3640559--3640616	19	3.0	20	82	5	68	20	27	27	24	1.99
3642443--3642497	24	2.3	24	96	0	101	29	18	29	23	1.98
3647868--3647908	10	4.0	11	78	15	52	14	26	29	29	1.95
3647868--3647908	20	2.0	21	90	4	66	14	26	29	29	1.95
3647901--3647952	20	2.7	20	84	3	70	19	25	28	26	1.98
3647905--3647961	10	5.9	10	78	10	57	15	26	29	28	1.96
3647903--3647962	9	6.3	9	74	11	57	16	28	28	26	1.97
3652460--3652498	2	19.5	2	94	0	60	46	0	5	48	1.24
3655149--3655267	57	2.1	57	93	3	204	35	22	14	27	1.93
3659851--3659902	21	2.5	21	81	3	61	38	19	25	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3659891--3659984	20	4.7	20	80	7	100	34	24	18	23	1.96
3660500--3660571	19	3.7	19	81	3	81	45	23	19	11	1.82
3660567--3660636	19	3.7	19	83	7	97	12	18	21	47	1.82
3660609--3660672	33	1.9	34	90	3	103	10	23	23	42	1.86
3662791--3662879	42	2.1	42	82	0	115	22	37	16	23	1.94
3664269--3664304	14	2.6	14	95	0	63	30	0	25	44	1.54
3664411--3664500	33	2.7	33	87	0	126	44	18	22	14	1.86
3664500--3664626	33	3.8	33	85	8	177	15	21	18	44	1.87
3664496--3664626	19	7.7	19	64	23	76	15	21	19	44	1.87
3666918--3666942	12	2.1	12	100	0	50	0	28	0	72	0.86
3667117--3667170	24	2.2	24	90	0	81	38	20	16	24	1.92
3668226--3668283	20	2.9	20	92	0	98	37	22	22	17	1.93
3668302--3668388	19	4.8	19	90	9	139	13	21	17	47	1.82
3668302--3668417	33	3.4	33	84	11	151	13	22	19	43	1.86
3668503--3668539	14	2.6	14	86	0	56	48	21	0	29	1.50
3670355--3670422	20	3.5	20	81	2	84	39	23	22	14	1.91
3670411--3670468	14	3.9	14	79	16	71	48	25	17	8	1.75
3670395--3670473	32	2.4	33	93	2	133	48	24	17	10	1.78
3670480--3670542	18	3.7	18	75	18	71	12	20	22	44	1.85
3670527--3670581	20	2.8	19	83	8	65	16	23	23	36	1.94
3671063--3671102	18	2.2	18	90	0	62	15	12	45	27	1.82
3672385--3672430	20	2.3	20	88	0	65	36	28	17	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3672694--3672737	22	2.0	22	90	0	70	20	15	43	20	1.88
3672924--3673037	20	5.7	20	82	6	122	24	18	26	30	1.98
3672904--3673039	41	3.3	41	79	6	159	24	17	25	33	1.97
3672904--3673059	41	3.8	41	76	3	109	23	19	24	33	1.97
3673654--3673711	29	2.0	29	96	0	107	24	29	3	43	1.70
3674260--3674365	51	2.1	51	82	3	126	28	16	30	25	1.96
3674378--3674492	51	2.3	51	81	6	126	22	24	33	20	1.97
3675930--3675970	19	2.2	19	86	8	57	63	0	2	34	1.08
3676047--3676114	16	4.1	16	80	15	84	36	0	0	63	0.95
3676047--3676091	8	5.6	8	81	0	54	33	0	0	66	0.92
3678133--3678181	23	2.2	22	82	10	55	61	2	4	32	1.26
3678683--3678762	3	26.0	3	87	5	115	37	0	0	62	0.95
3680042--3680082	13	3.2	13	77	16	50	34	4	0	60	1.18
3691265--3691334	5	13.8	5	78	14	72	85	0	14	0	0.59
3691264--3691336	1	73.0	1	72	0	56	86	0	13	0	0.58
3691262--3691336	26	2.9	26	86	11	109	85	0	14	0	0.60
3691258--3691334	15	4.9	16	87	12	108	84	0	15	0	0.62
3692728--3693000	83	3.1	84	83	10	350	29	12	21	36	1.90
3692737--3693020	92	3.2	91	85	6	363	29	13	21	36	1.91
3693710--3695583	113	16.6	113	96	0	3311	36	16	18	29	1.92
3695853--3695949	3	31.7	3	85	4	131	39	0	0	60	0.97
3701798--3701837	16	2.6	16	88	4	55	37	12	20	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3702067--3702097	6	5.2	6	100	0	62	67	16	0	16	1.23
3710777--3710905	59	2.2	60	84	2	161	51	20	6	22	1.69
3710882--3710929	11	4.4	11	86	0	69	43	20	4	31	1.71
3710890--3710936	22	2.1	22	96	0	85	38	23	8	29	1.84
3712293--3712325	2	17.0	2	93	6	59	48	0	0	51	1.00
3712621--3712673	21	2.5	21	84	0	61	22	0	24	52	1.47
3712719--3712809	7	13.0	7	92	0	155	16	0	39	43	1.48
3741480--3741539	31	1.9	31	83	6	77	36	1	1	60	1.17
3742032--3742071	4	10.0	4	88	0	53	42	0	0	57	0.98
3742032--3742071	6	6.7	6	88	0	53	42	0	0	57	0.98
3742032--3742071	10	4.0	10	90	0	53	42	0	0	57	0.98
3751871--3752266	197	2.0	199	96	3	737	36	15	20	27	1.93
3758505--3758543	19	2.1	19	85	0	51	56	2	5	35	1.35
3758502--3758679	88	2.0	88	100	0	356	47	4	6	41	1.50
3758593--3758631	19	2.1	19	85	0	51	56	2	5	35	1.35
3768407--3768451	23	2.0	23	86	0	63	20	26	26	26	1.99
3769933--3769973	20	2.1	20	95	4	75	53	17	29	0	1.44
3790595--3790697	51	2.0	51	100	0	206	46	3	3	45	1.39
3799711--3799752	19	2.2	19	87	8	59	40	19	0	40	1.51
3804597--3804650	27	2.0	27	100	0	108	37	29	3	29	1.75
3818799--3819219	202	2.1	201	83	1	520	31	14	19	34	1.91
3818799--3819301	202	2.5	201	80	3	465	32	14	19	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3820461--3820528	23	3.0	23	93	0	109	23	26	29	20	1.99
3820545--3820757	103	2.1	103	96	0	390	36	23	13	26	1.92
3821574--3821619	20	2.3	20	100	0	92	21	30	0	47	1.51
3822132--3822211	23	3.7	22	90	8	128	20	28	23	27	1.99
3822879--3823157	43	6.5	43	85	4	330	27	20	23	28	1.99
3822897--3823205	86	3.6	85	79	8	288	27	21	23	27	1.99
3822919--3823205	129	2.2	128	82	6	341	26	20	23	28	1.99
3823330--3823375	21	2.2	21	84	0	56	60	17	4	17	1.51
3828130--3828523	83	4.8	83	86	2	481	32	18	20	28	1.96
3828130--3828492	41	8.8	41	82	3	406	33	19	19	28	1.96
3830899--3830940	15	2.9	14	85	7	57	28	30	26	14	1.95
3831027--3831099	29	2.6	29	91	2	112	21	17	16	43	1.87
3831479--3831635	64	2.5	63	78	12	169	26	19	19	34	1.96
3834022--3834088	22	3.0	22	100	0	134	26	26	26	19	1.99
3835099--3835133	18	1.9	18	88	11	54	22	17	5	54	1.64
3835718--3835763	21	2.2	21	88	0	65	15	26	28	30	1.96
3838861--3838927	22	3.0	22	100	0	134	26	26	26	19	1.99
3839942--3839976	18	1.9	18	88	11	54	22	17	5	54	1.64
3840561--3840603	21	2.0	21	86	0	59	16	27	27	27	1.97
3844245--3844302	6	9.7	6	100	0	116	0	65	0	34	0.93
3882192--3882273	22	3.7	22	82	6	94	23	29	25	21	1.99
3885486--3885542	29	2.0	29	100	0	114	14	35	31	19	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3885613--3885697	29	2.9	29	94	0	143	12	34	30	22	1.92
3885701--3885785	33	2.6	33	88	3	118	8	38	27	25	1.84
3885767--3885799	14	2.4	14	94	0	57	6	30	39	24	1.79
3895187--3895215	2	14.5	2	100	0	58	48	0	0	51	1.00
3896191--3896246	27	2.1	27	86	0	76	44	23	7	25	1.78
3896200--3896257	27	2.1	27	93	0	98	43	25	3	27	1.71
3897975--3898083	49	2.2	50	90	3	175	44	3	3	48	1.38
3898235--3898338	39	2.6	38	82	13	102	50	2	1	45	1.28
3898323--3898355	17	1.9	17	100	0	66	51	0	0	48	1.00
3898329--3898380	26	2.0	26	81	7	61	44	0	1	53	1.11

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