genome.fa.s8029.2.7.7.80.10.50.1000.17.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: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3983240

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  17  of  18  ( 2124 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)
3640780--3640856	32	2.4	33	79	14	81	27	18	16	37	1.92
3640792--3640858	32	2.0	32	85	5	89	26	17	14	40	1.89
3641878--3641914	13	2.8	13	88	12	58	0	10	16	72	1.10
3641904--3641940	20	2.0	20	89	10	60	0	13	5	81	0.86
3641914--3641962	14	3.6	14	79	20	68	0	16	6	77	0.96
3641904--3641976	26	2.9	25	82	8	85	1	16	5	76	1.04
3645805--3645867	29	2.1	29	82	2	72	52	11	11	25	1.70
3656483--3656642	60	2.7	60	93	1	250	36	14	17	31	1.90
3660757--3660786	2	15.0	2	100	0	60	50	0	50	0	1.00
3663349--3663432	3	27.3	3	78	4	87	34	1	1	63	1.10
3664884--3664954	15	4.6	15	69	19	56	26	5	2	64	1.29
3665120--3665337	117	1.9	118	87	2	323	38	8	8	44	1.64
3675830--3676199	184	2.0	185	94	0	643	31	14	14	40	1.85
3676140--3676321	76	2.4	76	93	0	301	23	19	21	35	1.96
3676268--3676686	45	9.3	45	91	1	642	21	22	20	36	1.95
3676803--3676878	3	26.3	3	78	7	77	34	1	1	63	1.11
3677126--3677171	15	3.1	15	96	3	85	0	39	41	19	1.52
3680714--3680901	104	1.8	99	88	5	286	33	9	12	44	1.74
3682525--3682863	167	2.0	171	97	2	650	29	10	24	35	1.88
3683043--3683192	55	2.7	55	84	0	201	45	13	20	20	1.85
3686200--3686256	22	2.5	22	88	2	78	45	1	42	10	1.49
3688215--3688572	59	6.1	59	72	12	263	29	23	10	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3688288--3688566	117	2.4	117	87	3	409	30	22	9	37	1.86
3689033--3689084	19	2.7	19	96	0	95	25	30	17	26	1.97
3695447--3695706	58	4.4	59	72	9	183	30	21	9	37	1.86
3695506--3695705	58	3.4	58	73	10	190	29	23	10	37	1.88
3695431--3695706	117	2.4	117	86	2	376	31	22	9	36	1.86
3696112--3696159	19	2.6	18	83	9	62	27	27	18	27	1.98
3697615--3697762	1	148.0	1	80	0	125	87	0	12	0	0.55
3697616--3697785	9	19.2	9	81	11	174	84	0	13	1	0.70
3697617--3697766	26	5.8	26	84	6	162	86	0	13	0	0.57
3697604--3697785	8	22.1	8	78	14	135	84	0	13	2	0.72
3697616--3697766	42	3.5	43	79	9	173	86	0	13	0	0.56
3698938--3699133	52	3.8	51	87	3	268	34	17	26	20	1.95
3700635--3700851	43	5.1	43	88	3	312	26	15	30	27	1.96
3700932--3701221	90	3.2	90	92	0	472	25	17	22	34	1.96
3701203--3701299	42	2.3	41	83	1	113	24	19	22	32	1.97
3701709--3701743	3	11.7	3	100	0	70	34	0	0	65	0.93
3702153--3702204	22	2.4	22	83	0	68	48	28	1	21	1.61
3703588--3703789	104	2.0	102	90	2	316	33	9	13	43	1.77
3704941--3704981	12	3.3	12	96	3	73	70	0	29	0	0.87
3705604--3705630	3	9.0	3	100	0	54	66	0	0	33	0.92
3708034--3708073	21	1.9	21	89	0	62	30	7	12	50	1.68
3708643--3708679	2	19.0	2	94	5	67	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3709283--3709377	32	3.1	31	77	8	88	29	29	9	31	1.89
3711377--3711442	31	2.2	31	88	2	98	25	9	33	31	1.87
3711569--3711601	16	2.1	16	100	0	66	51	0	6	42	1.26
3719360--3719411	20	2.5	21	78	3	52	51	1	1	44	1.23
3719503--3719593	29	3.1	28	63	12	67	51	3	5	39	1.41
3719750--3719796	23	2.0	23	91	0	76	51	4	10	34	1.56
3720958--3721000	22	2.0	22	86	9	61	67	4	4	23	1.28
3724069--3724126	23	2.5	23	80	0	71	20	13	24	41	1.89
3724125--3724171	24	2.0	24	82	0	58	21	23	23	31	1.98
3725202--3725277	23	3.3	23	94	1	136	32	25	19	22	1.97
3727643--3727822	46	4.0	46	84	5	213	38	7	26	27	1.82
3727643--3727822	91	2.0	91	83	2	227	38	7	26	27	1.82
3727645--3727846	46	4.4	46	82	6	207	38	8	25	27	1.85
3727985--3728220	102	2.3	102	82	9	271	30	5	30	34	1.79
3728401--3728931	295	1.8	294	94	0	920	30	12	10	46	1.76
3728958--3728998	15	2.9	14	85	7	55	53	2	0	43	1.13
3728401--3728997	295	2.0	293	88	4	891	32	12	9	46	1.73
3728961--3729043	27	3.1	27	79	3	89	49	4	3	42	1.41
3729064--3729109	20	2.3	20	92	0	74	34	2	13	50	1.53
3729064--3729154	11	8.6	11	75	13	68	38	1	7	52	1.37
3729059--3729102	20	2.3	19	88	7	63	38	2	13	45	1.56
3729094--3729161	2	35.0	2	75	16	63	41	0	2	55	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3729094--3729157	15	4.5	15	81	16	66	40	0	3	56	1.15
3731156--3731201	17	2.7	17	86	0	65	50	13	4	32	1.61
3731589--3731634	16	3.1	16	75	18	53	34	6	30	28	1.82
3731613--3731892	130	2.1	132	84	4	350	47	14	15	22	1.82
3731860--3731924	29	2.2	29	86	10	105	50	4	16	27	1.65
3731860--3731932	29	2.5	29	84	4	85	53	4	15	27	1.60
3732816--3732920	55	1.9	56	90	2	167	22	20	13	43	1.86
3733283--3733767	131	3.7	130	81	3	551	25	17	31	25	1.97
3733840--3734021	36	5.4	35	61	20	91	38	11	23	26	1.89
3733775--3734049	66	4.2	66	88	0	397	36	12	23	27	1.91
3734080--3734155	36	2.1	36	85	4	100	34	13	25	27	1.93
3738188--3738227	21	1.9	21	89	0	62	50	2	2	45	1.28
3738193--3738238	21	2.1	21	84	4	56	50	4	4	41	1.42
3739416--3739457	16	2.6	16	77	7	50	30	4	28	35	1.78
3740452--3740625	95	1.8	95	86	4	253	35	14	21	28	1.93
3740614--3740673	20	2.9	20	77	5	57	30	11	30	28	1.92
3741120--3741427	45	6.9	45	85	3	390	40	8	19	30	1.82
3741167--3741427	134	1.9	135	86	3	375	40	8	21	29	1.82
3747472--3747657	94	2.0	96	83	8	238	33	16	22	27	1.95
3755190--3755496	45	6.8	45	88	4	431	40	10	20	28	1.85
3755188--3755535	45	7.7	45	87	4	400	40	9	20	29	1.84
3755190--3755535	90	3.8	89	85	5	446	40	9	20	29	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3756001--3756034	12	2.8	12	90	0	50	70	5	0	23	1.09
3756036--3756108	29	2.5	29	80	12	96	56	2	13	27	1.51
3756950--3757058	56	1.9	56	84	0	146	24	22	12	40	1.89
3757760--3757793	12	2.8	12	95	0	59	29	14	23	32	1.94
3759660--3759689	11	2.7	11	89	0	51	26	3	16	53	1.59
3759859--3759891	9	3.8	9	88	8	50	54	3	6	36	1.41
3759858--3759967	18	5.8	20	79	18	96	49	3	3	43	1.37
3759913--3759979	18	3.8	18	86	7	86	46	5	1	46	1.36
3759915--3760539	15	42.4	15	66	21	174	47	6	5	41	1.51
3759954--3760126	83	2.1	83	83	6	217	47	5	6	40	1.53
3760059--3760098	21	1.9	21	85	10	55	42	2	10	45	1.51
3760137--3760189	18	2.9	18	75	10	63	50	5	1	41	1.36
3760147--3760259	31	3.6	31	92	1	181	46	6	4	42	1.48
3760106--3760215	49	2.2	49	80	6	116	48	7	5	39	1.54
3760185--3760245	18	3.7	18	79	20	87	44	6	6	42	1.56
3760347--3760385	18	2.1	19	90	4	62	43	7	5	43	1.55
3760203--3760407	46	4.6	46	74	11	167	47	6	5	40	1.54
3760393--3760480	2	44.0	2	86	4	124	52	1	1	45	1.15
3759964--3760548	13	43.5	13	67	19	135	47	6	5	40	1.51
3760492--3760557	31	2.1	31	82	0	78	50	6	4	39	1.48
3760605--3760744	54	2.6	56	85	8	191	44	5	7	42	1.55
3760672--3760713	13	3.1	14	82	3	50	47	11	4	35	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3760857--3760906	21	2.4	21	100	0	100	42	8	10	40	1.68
3761069--3761111	21	2.0	21	90	0	68	41	6	6	44	1.58
3761126--3761218	36	2.6	36	87	0	141	41	4	8	45	1.54
3761239--3761287	25	2.0	25	84	8	64	42	2	8	46	1.45
3761264--3761336	36	2.1	34	89	5	110	43	9	2	43	1.51
3761406--3761475	22	3.2	21	79	15	72	47	2	2	47	1.32
3761834--3762129	112	2.6	109	77	10	242	32	26	5	35	1.79
3761917--3762129	113	1.9	112	81	4	259	31	26	5	36	1.80
3762272--3762371	6	16.7	6	77	0	83	48	42	4	6	1.46
3762253--3762315	24	2.6	24	89	0	90	44	42	4	7	1.54

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18