genome.fa.s8209.2.7.7.80.10.50.1000.18.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  18  of  30  ( 3569 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)
4193769--4194084	149	2.1	149	97	1	598	26	15	21	35	1.94
4194051--4194096	23	2.0	23	91	0	74	21	23	26	28	1.99
4204165--4204206	19	2.2	19	91	0	66	21	21	11	45	1.84
4204262--4204580	43	7.5	42	73	14	153	26	17	6	49	1.70
4204260--4204390	45	3.0	42	78	10	129	25	12	6	55	1.61
4204380--4204553	85	2.1	84	80	5	190	27	20	5	47	1.71
4204516--4204594	41	1.9	41	84	5	106	22	21	6	49	1.72
4205087--4205366	38	7.6	37	74	13	186	42	4	8	44	1.53
4205087--4205339	34	6.9	37	76	12	168	43	3	8	44	1.53
4205212--4205236	12	2.1	12	100	0	50	40	8	8	44	1.63
4205121--4205366	39	6.6	36	76	12	187	43	4	8	43	1.56
4205093--4205366	36	7.5	34	73	15	151	42	4	8	44	1.54
4205119--4205366	72	3.3	72	79	10	243	43	4	8	43	1.56
4205425--4205461	3	12.3	3	100	0	74	32	0	0	67	0.91
4208335--4208379	19	2.4	19	92	3	74	11	13	8	66	1.44
4211736--4212811	84	12.9	83	81	5	1199	30	23	19	25	1.98
4211707--4212846	249	4.6	249	93	1	1768	30	24	20	25	1.98
4213484--4213763	38	7.6	37	74	13	186	42	4	8	44	1.53
4213484--4213736	34	6.9	37	76	12	168	43	3	8	44	1.53
4213609--4213633	12	2.1	12	100	0	50	40	8	8	44	1.63
4213518--4213763	39	6.6	36	76	12	187	43	4	8	43	1.56
4213490--4213763	36	7.5	34	73	15	151	42	4	8	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4213516--4213763	72	3.3	72	79	10	243	43	4	8	43	1.56
4213826--4213863	3	12.3	3	94	5	67	31	0	0	68	0.90
4216744--4216788	22	2.0	23	95	4	83	22	13	8	55	1.65
4219492--4219808	155	2.0	161	95	4	574	29	17	12	39	1.87
4220769--4220884	56	2.1	57	93	1	198	25	10	12	51	1.70
4225906--4226041	26	5.3	26	69	16	95	42	15	8	33	1.78
4225885--4226052	77	2.2	77	90	6	259	40	15	8	35	1.77
4226010--4226242	65	3.6	65	77	16	254	40	14	7	37	1.73
4230954--4231029	38	2.0	38	89	2	118	35	6	11	46	1.67
4232450--4232558	55	1.9	57	83	9	143	36	11	17	33	1.87
4234773--4234841	30	2.3	30	89	2	111	36	18	11	33	1.87
4235785--4236115	169	2.0	165	94	3	583	28	20	25	25	1.99
4237038--4237076	20	2.1	19	90	9	62	28	30	15	25	1.96
4240774--4240903	65	2.0	65	100	0	260	36	16	3	43	1.64
4241476--4241526	21	2.5	20	87	6	68	47	11	17	23	1.81
4242343--4242408	24	2.8	24	72	19	66	28	25	25	19	1.99
4245075--4245113	10	3.9	10	100	0	78	7	41	0	51	1.31
4250836--4250862	5	5.4	5	100	0	54	0	40	40	18	1.51
4250860--4250884	6	4.2	6	100	0	50	0	16	48	36	1.46
4256765--4256789	6	4.2	6	100	0	50	0	16	48	36	1.46
4264270--4264322	2	26.5	2	92	7	90	49	1	0	49	1.12
4264992--4265060	34	2.1	32	83	5	84	21	30	14	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4265344--4265385	21	2.0	21	95	0	75	26	28	21	23	1.99
4265469--4265528	29	2.0	31	90	6	97	41	16	6	35	1.75
4268752--4268961	65	3.2	64	78	8	201	26	18	24	30	1.98
4280954--4281000	13	3.8	12	83	16	60	68	0	2	29	1.02
4280954--4281000	25	1.9	25	91	4	78	68	0	2	29	1.02
4280943--4281000	25	2.3	25	85	5	73	70	0	3	25	1.03
4283658--4283700	21	2.0	21	95	0	77	16	20	4	58	1.56
4289661--4289686	13	2.0	13	100	0	52	38	15	46	0	1.46
4292568--4292592	13	1.9	13	100	0	50	48	0	0	52	1.00
4292568--4292597	15	2.0	15	100	0	60	46	0	0	53	1.00
4294612--4294798	93	2.0	93	100	0	374	41	20	10	27	1.85
4304927--4305002	24	3.2	24	88	0	98	25	14	19	40	1.89
4309491--4309574	24	3.5	24	86	3	89	26	15	20	38	1.92
4311566--4311590	2	12.5	2	100	0	50	48	0	0	52	1.00
4313021--4313132	59	1.9	57	87	7	163	42	16	8	33	1.77
4313270--4313326	29	2.0	29	85	0	78	47	8	8	35	1.66
4314230--4314290	2	32.0	2	90	9	101	50	0	0	49	1.00
4314230--4314314	33	2.5	36	81	14	101	54	0	0	45	1.00
4332165--4332283	24	5.0	24	86	0	139	36	19	13	30	1.90
4332158--4332283	48	2.6	48	84	0	162	38	19	12	29	1.88
4334706--4334744	13	3.0	13	84	0	60	15	17	46	20	1.84
4336521--4336569	24	2.0	24	96	0	89	36	10	16	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4349122--4349152	14	2.2	14	100	0	62	12	6	29	51	1.65
4349235--4349275	16	2.6	16	88	0	64	7	2	34	56	1.40
4350318--4350379	23	2.6	24	82	5	72	53	0	3	43	1.17
4351949--4352051	40	2.6	40	95	3	181	17	20	8	53	1.70
4351845--4352172	164	2.0	163	84	4	428	22	18	14	44	1.86
4352205--4352759	113	4.9	113	91	1	799	26	18	15	39	1.90
4353160--4353236	22	3.5	22	90	0	127	38	12	12	35	1.82
4358137--4358195	18	3.2	18	80	7	64	1	18	0	79	0.81
4358136--4358195	19	3.2	19	86	9	70	1	18	0	80	0.80
4358135--4358195	20	3.2	19	86	11	72	1	18	0	80	0.80
4358133--4358195	24	2.7	23	83	14	67	1	17	0	80	0.78
4358137--4358186	9	5.6	9	77	15	50	2	18	0	80	0.82
4358156--4358218	27	2.4	28	80	15	73	1	14	4	79	0.97
4358512--4358562	2	25.5	2	100	0	102	50	0	0	49	1.00
4369897--4369927	12	2.6	12	100	0	62	35	32	32	0	1.58
4370030--4370085	27	2.1	27	96	0	103	35	25	14	25	1.93
4372483--4372520	16	2.4	16	95	0	67	47	18	10	23	1.79
4374828--4375077	84	3.0	83	85	2	313	25	20	23	30	1.99
4374748--4375079	84	4.0	84	80	6	300	25	20	24	30	1.99
4375132--4375200	21	3.6	21	68	22	69	31	14	27	26	1.95
4375082--4375203	36	3.4	36	88	3	174	35	16	23	24	1.95
4375584--4376686	105	10.5	105	93	0	1821	23	18	25	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4375584--4376686	316	3.5	315	93	0	1830	23	18	25	32	1.97
4375583--4376686	421	2.6	420	94	0	1920	23	18	25	32	1.97
4385491--4386263	48	16.0	47	71	10	314	31	22	13	32	1.92
4385491--4385930	193	2.3	193	87	1	623	30	22	14	32	1.93
4385491--4386292	241	3.3	242	77	6	745	31	22	12	33	1.92
4385491--4386276	193	4.1	190	80	5	620	31	22	13	33	1.92
4385564--4386219	289	2.3	289	81	2	735	31	22	12	33	1.92
4385570--4386171	145	4.2	144	76	5	520	31	22	13	32	1.92
4385910--4386360	193	2.3	193	82	5	520	32	21	12	33	1.91
4393025--4393073	17	2.7	19	84	9	66	73	0	14	12	1.10
4393575--4393609	17	2.1	17	88	0	52	42	22	5	28	1.76
4393699--4394257	294	1.9	296	85	3	734	28	12	26	31	1.93
4394257--4394969	274	2.5	280	80	7	735	27	15	27	30	1.96
4407591--4407627	15	2.5	15	90	0	56	43	0	5	51	1.24
4408747--4408804	29	2.0	28	86	3	80	36	0	0	63	0.94
4408747--4408815	29	2.5	28	80	4	77	39	1	0	59	1.06
4409125--4409169	23	2.0	23	86	0	63	51	8	6	33	1.59
4410598--4411065	236	2.0	236	99	0	918	38	10	16	34	1.82
4417991--4418312	161	2.0	158	84	5	416	49	6	17	26	1.71
4423357--4423392	2	18.0	2	100	0	72	50	0	0	50	1.00
4424560--4424606	23	2.0	23	100	0	94	27	25	17	29	1.97
4425492--4425565	23	3.2	23	78	0	76	35	21	22	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4426472--4426518	21	2.2	21	96	0	85	31	25	4	38	1.75
4428722--4428936	39	5.4	39	71	14	145	41	12	4	41	1.63
4428722--4428817	43	2.2	43	83	3	113	40	10	2	46	1.50
4429050--4429143	41	2.3	41	87	7	129	45	10	5	38	1.62
4429153--4429375	58	3.9	57	82	5	261	44	11	7	36	1.69
4429153--4429365	115	1.9	114	84	3	284	45	11	7	36	1.68
4429358--4429391	16	2.1	16	94	0	59	47	11	2	38	1.55
4429300--4429442	74	1.9	74	91	0	232	45	12	6	34	1.69
4429374--4429528	58	2.7	58	90	0	229	43	12	7	35	1.72
4429243--4429500	132	2.0	131	87	2	374	44	12	7	35	1.70

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