genome.fa.s8364.2.7.7.80.10.50.1000.17.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

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   

This is table  17  of  27  ( 3136 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)
3888711--3888771	25	2.3	26	86	5	79	47	1	8	42	1.43
3888717--3888752	16	2.2	17	90	5	56	47	0	5	47	1.25
3891447--3891485	20	2.0	20	84	0	51	56	2	12	28	1.50
3899998--3900073	21	3.7	21	79	10	93	38	25	17	19	1.93
3900212--3900269	22	2.6	22	83	0	80	20	46	17	15	1.84
3900629--3900680	24	2.2	24	82	0	59	36	21	19	23	1.95
3901485--3901574	20	4.4	20	79	8	74	24	18	28	27	1.98
3915276--3915301	2	13.0	2	100	0	52	50	0	0	50	1.00
3916862--3916892	16	1.9	16	93	0	53	29	3	19	48	1.64
3920600--3920643	3	14.3	3	95	4	79	63	0	0	36	0.95
3931159--3931216	29	2.0	29	100	0	116	37	17	24	20	1.93
3936633--3936684	2	26.0	2	100	0	104	50	0	0	50	1.00
3938514--3938568	25	2.2	24	81	9	67	58	0	3	38	1.16
3945532--3945689	84	1.9	85	87	1	237	42	12	12	32	1.80
3945909--3945990	40	2.0	40	100	0	164	45	21	2	30	1.65
3948614--3948671	3	18.7	3	82	10	64	70	0	0	29	0.87
3948623--3948671	22	2.2	22	89	7	73	69	0	0	30	0.89
3948613--3948671	16	3.7	17	84	8	72	71	0	0	28	0.87
3956311--3956351	19	2.2	19	100	0	82	48	0	36	14	1.44
3958103--3958260	21	7.8	20	70	7	77	37	25	17	18	1.93
3958228--3958436	20	10.4	20	80	6	199	38	25	17	18	1.93
3959105--3959151	24	2.0	24	87	8	69	25	14	21	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3959326--3959350	12	2.1	12	100	0	50	72	0	28	0	0.86
3961642--3961836	19	10.7	19	83	12	266	45	17	20	16	1.85
3961642--3961836	91	2.1	91	93	1	329	45	17	20	16	1.85
3961695--3961830	72	1.9	71	98	1	263	46	16	21	15	1.84
3961826--3961943	53	2.2	52	93	3	200	14	23	16	44	1.85
3961845--3961943	19	5.4	19	78	14	118	15	22	16	46	1.83
3962050--3962086	14	2.6	14	91	0	65	45	21	0	32	1.52
3964065--3964121	14	3.7	14	75	20	51	43	22	22	10	1.84
3964046--3964138	33	2.8	33	93	0	159	45	22	21	10	1.83
3964009--3964143	19	7.6	19	73	16	110	44	24	20	11	1.83
3964155--3964213	14	3.9	14	76	20	64	6	16	28	47	1.72
3964139--3964262	33	3.7	33	89	1	176	9	17	26	45	1.79
3964139--3964197	19	3.4	19	77	22	83	6	15	30	47	1.71
3964188--3964244	14	3.7	14	72	20	51	10	22	22	43	1.84
3966176--3966239	20	3.2	20	82	4	92	46	15	25	12	1.81
3966174--3966238	21	3.1	21	82	4	96	47	15	26	10	1.78
3966264--3966344	33	2.5	33	91	0	135	8	20	22	48	1.77
3966280--3966336	14	3.7	14	70	20	51	8	22	22	45	1.80
3966321--3966397	21	3.7	21	82	6	111	12	23	16	46	1.82
3966477--3966547	33	2.2	33	94	0	124	47	16	23	11	1.79
3966928--3967080	20	7.6	20	84	4	184	19	18	27	34	1.95
3969658--3969688	16	1.9	16	93	0	53	19	6	19	54	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3972116--3972157	2	21.0	2	100	0	84	50	0	0	50	1.00
3989676--3989716	2	21.5	2	85	9	59	0	48	2	48	1.14
3993858--3993979	65	1.9	65	91	0	199	44	2	1	51	1.24
3994161--3994213	24	2.2	24	83	3	63	49	1	0	49	1.12
3997829--3997867	20	2.0	19	85	5	51	30	0	12	56	1.37
4000392--4000420	14	2.0	15	93	6	51	62	10	6	20	1.50
4008417--4008445	14	2.0	15	93	6	51	62	10	6	20	1.50
4009055--4009157	36	2.9	35	82	5	134	43	16	14	25	1.86
4011894--4011923	15	1.9	16	93	6	53	30	0	0	70	0.88
4018799--4018893	33	2.9	33	90	3	156	31	22	25	21	1.98
4019198--4019601	60	6.8	60	72	8	272	30	27	20	21	1.98
4019616--4019738	33	3.7	33	84	0	165	34	32	12	21	1.90
4035227--4035269	18	2.3	18	80	4	50	0	46	6	46	1.30
4035235--4035282	24	2.0	24	83	0	60	0	50	8	41	1.33
4040604--4040652	10	5.0	10	80	5	55	2	28	18	51	1.58
4040605--4040653	19	2.5	19	80	3	53	2	30	18	48	1.59
4043759--4043798	14	2.8	15	88	7	57	25	7	27	40	1.82
4044121--4044167	16	2.9	16	100	0	94	19	19	29	31	1.96
4045272--4045306	13	2.5	14	90	9	54	40	0	0	60	0.97
4045273--4045306	14	2.3	15	85	10	52	38	0	0	61	0.96
4045604--4045684	2	41.5	2	95	4	148	49	0	0	50	1.00
4047864--4047889	13	2.0	13	100	0	52	30	15	30	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4048236--4048262	2	13.5	2	100	0	54	48	0	0	51	1.00
4048342--4048376	2	17.5	2	100	0	70	48	0	0	51	1.00
4048453--4048503	21	2.4	21	84	12	61	23	7	0	68	1.15
4052412--4052749	183	1.8	183	93	0	586	27	21	20	30	1.98
4053812--4053859	23	2.0	24	96	4	89	20	18	12	47	1.81
4053884--4053966	36	2.4	35	85	4	105	26	20	14	38	1.91
4053849--4054028	98	1.8	98	89	2	281	33	19	12	34	1.90
4053917--4054091	63	2.8	64	87	8	243	33	20	12	34	1.89
4053917--4054091	62	2.8	62	86	10	230	33	20	12	34	1.89
4053984--4054255	100	2.7	101	90	3	417	31	19	12	36	1.89
4054144--4054229	36	2.4	36	86	3	111	25	18	13	41	1.88
4053849--4054391	263	2.1	257	82	8	652	32	18	11	36	1.88
4054281--4054387	35	3.1	34	79	10	126	28	20	12	39	1.88
4054431--4054543	31	3.5	32	86	8	149	36	19	11	32	1.88
4054499--4054686	66	2.8	64	80	6	205	28	22	12	36	1.91
4054832--4054865	14	2.3	15	90	5	52	44	17	20	17	1.87
4054993--4055225	106	2.2	107	87	0	333	35	26	16	21	1.94
4056542--4056593	2	27.5	2	88	11	83	50	0	0	50	1.00
4057763--4057906	60	2.4	60	80	2	146	37	16	4	40	1.70
4057810--4057940	60	2.2	59	80	4	154	31	22	6	39	1.79
4058387--4058432	16	2.9	16	83	3	58	13	15	23	47	1.80
4059496--4059760	135	2.0	131	90	4	417	25	20	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4067113--4067145	17	1.9	17	93	0	57	75	15	3	6	1.11
4069737--4069774	17	2.2	17	86	9	51	57	0	7	34	1.28
4071541--4071583	21	2.2	19	83	8	50	44	9	16	30	1.79
4072218--4072270	23	2.3	23	83	0	70	20	20	22	35	1.96
4076054--4076105	19	2.7	20	90	6	88	9	21	23	46	1.80
4076118--4076221	19	5.3	19	80	6	109	21	18	17	43	1.88
4076097--4076228	41	3.3	41	77	6	171	21	17	19	41	1.90
4076058--4076221	79	2.1	79	89	5	251	18	18	19	43	1.89
4076903--4076951	22	2.2	22	85	0	71	38	28	16	16	1.90
4078848--4079020	86	2.0	86	100	0	346	36	23	13	26	1.92
4084910--4084952	17	2.5	17	88	0	59	18	16	25	39	1.91
4089941--4090090	75	2.0	75	100	0	300	20	30	14	34	1.92
4100925--4100956	16	2.1	16	94	5	57	34	12	18	34	1.89
4108920--4108968	25	2.0	25	96	4	91	26	0	4	69	1.06
4110114--4110189	35	2.1	37	85	7	102	48	1	3	46	1.29
4117456--4117515	30	2.0	30	96	0	111	30	5	20	45	1.72
4117597--4117676	21	3.8	21	96	0	151	21	37	18	22	1.94
4117696--4117771	21	3.7	21	96	1	136	19	34	18	27	1.95
4118135--4118204	34	2.1	32	86	5	95	31	15	30	22	1.95
4121022--4121081	30	2.0	30	96	0	111	30	5	20	45	1.72
4121163--4121220	21	2.8	21	100	0	116	20	36	18	24	1.95
4121283--4121358	21	3.7	21	96	1	136	19	34	18	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4121713--4121782	34	2.1	32	84	5	86	31	15	28	24	1.96
4122673--4122725	21	2.5	21	78	3	61	62	5	1	30	1.29
4123947--4124001	24	2.2	26	75	9	62	58	3	1	36	1.26
4123964--4124061	39	2.5	41	80	11	116	47	5	2	44	1.36
4124743--4124783	20	2.0	20	86	9	57	39	9	7	43	1.65
4131750--4131818	18	3.8	18	92	0	102	26	33	21	18	1.97
4132100--4132235	68	2.1	66	90	9	219	36	21	8	33	1.84
4133756--4133878	61	2.0	61	100	0	246	33	16	19	30	1.94
4137398--4137441	19	2.5	17	89	10	70	75	0	4	20	0.98
4137400--4137441	9	4.7	9	82	5	50	73	0	4	21	1.01

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