genome.fa.s8724.2.7.7.80.10.50.1000.20.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: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5289199

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  20  of  23  ( 2733 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)
4546864--4546893	2	15.0	2	100	0	60	50	0	0	50	1.00
4555665--4555833	84	2.0	84	100	0	338	35	14	22	27	1.93
4560599--4560633	2	17.5	2	100	0	70	51	0	0	48	1.00
4560834--4560881	25	1.9	25	91	0	78	47	0	14	37	1.44
4560834--4560890	25	2.2	25	84	3	69	50	1	12	35	1.50
4561070--4561157	21	4.2	21	82	2	115	21	25	15	37	1.93
4561073--4561154	41	2.0	42	87	2	121	21	24	14	39	1.91
4564564--4564674	19	6.4	17	72	23	81	43	19	23	13	1.87
4564602--4564684	14	5.3	14	70	23	58	43	19	25	12	1.85
4564584--4564708	33	3.8	33	94	3	218	44	19	24	12	1.84
4564713--4564750	19	2.0	19	100	0	76	10	15	26	47	1.78
4564717--4564782	19	3.7	19	71	22	63	10	21	22	45	1.82
4564889--4564924	13	2.6	15	79	20	51	50	19	0	30	1.48
4565887--4566219	168	2.0	165	95	4	607	40	24	10	24	1.87
4566442--4566522	21	3.9	21	69	6	65	24	22	32	20	1.98
4566427--4566535	42	2.6	41	82	5	112	22	20	33	22	1.97
4566943--4567069	19	6.8	19	71	15	95	46	18	19	14	1.84
4566942--4567066	39	3.4	36	77	15	114	46	18	19	16	1.84
4567073--4567198	19	7.2	18	72	22	90	7	20	22	50	1.72
4567078--4567198	33	3.5	33	82	5	134	7	19	22	50	1.72
4567138--4567193	18	3.0	19	82	12	80	5	23	19	51	1.67
4567285--4567645	93	4.0	88	80	13	366	47	18	12	21	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4567296--4567649	91	4.0	86	78	15	300	47	17	12	21	1.81
4569316--4569411	20	5.2	20	72	21	91	45	18	23	11	1.82
4569363--4569435	14	4.6	14	73	21	56	43	21	24	9	1.82
4569314--4569435	33	3.5	33	85	9	149	45	19	24	10	1.82
4570065--4570181	61	1.9	60	91	1	189	31	20	19	28	1.97
4570148--4570200	21	2.5	21	87	0	79	35	18	26	18	1.95
4571830--4571871	2	21.0	2	100	0	84	50	0	0	50	1.00
4573796--4573842	24	2.0	24	86	0	67	46	2	0	51	1.13
4574909--4574936	2	14.0	2	100	0	56	50	0	0	50	1.00
4576863--4576909	24	2.0	24	86	0	67	46	2	0	51	1.13
4579303--4579349	24	2.0	24	86	0	67	46	2	0	51	1.13
4586763--4586818	27	2.1	27	89	0	85	35	26	10	26	1.89
4588649--4588679	3	10.7	3	93	6	55	67	0	0	32	0.91
4589270--4589314	20	2.3	19	82	17	65	40	4	2	53	1.33
4591409--4591457	21	2.1	25	85	14	70	42	2	4	51	1.32
4595694--4596022	164	2.0	165	99	0	651	28	24	17	29	1.97
4596467--4596720	41	6.1	41	72	13	171	33	16	19	30	1.94
4596474--4596719	124	2.0	124	84	4	318	34	16	19	29	1.94
4596466--4596648	83	2.2	82	80	11	187	34	19	17	28	1.94
4597166--4597214	22	2.2	22	92	0	80	42	8	16	32	1.77
4598474--4598669	41	4.8	41	86	0	230	30	17	20	31	1.96
4598474--4598691	82	2.7	82	79	2	242	27	17	21	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4598637--4598725	42	2.1	42	83	2	108	23	16	20	39	1.92
4598663--4598744	42	2.0	42	87	4	121	21	15	20	41	1.90
4598669--4598757	42	2.1	42	81	4	99	21	14	22	41	1.89
4605109--4605259	43	3.5	44	79	7	173	31	24	19	24	1.98
4609147--4609264	54	2.2	54	85	0	155	36	16	18	27	1.93
4615798--4615859	25	2.5	26	81	5	65	54	8	3	33	1.46
4616219--4616321	54	1.9	54	82	4	127	36	16	15	31	1.90
4617026--4617067	22	1.9	22	95	0	75	26	21	14	38	1.91
4622457--4622576	26	4.8	26	75	12	108	20	18	9	51	1.73
4622475--4622678	46	4.4	45	73	19	179	22	19	10	47	1.79
4622474--4622667	66	2.8	69	83	5	250	22	21	10	45	1.81
4623101--4623153	22	2.4	22	100	0	106	28	22	11	37	1.89
4627179--4627284	17	6.1	17	72	14	74	40	8	12	38	1.73
4628049--4628236	63	3.0	63	96	1	342	30	20	10	38	1.86
4628333--4628442	40	2.7	39	93	5	184	32	26	17	23	1.96
4632281--4632396	9	13.4	8	74	16	65	1	20	1	75	0.97
4632280--4632372	9	10.6	9	74	20	81	1	19	2	77	0.93
4632280--4632380	16	6.3	16	76	14	75	1	18	1	77	0.97
4632324--4632350	12	2.2	12	100	0	54	0	14	7	77	0.97
4632277--4632391	17	6.7	17	78	17	80	1	20	1	75	0.98
4635047--4635171	63	2.0	63	93	0	214	28	19	10	41	1.84
4635254--4635363	40	2.8	40	95	0	202	33	27	16	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4635679--4635727	24	2.0	24	100	0	98	42	12	12	32	1.79
4641041--4641146	17	6.1	17	74	12	90	39	10	12	37	1.77
4641138--4641181	17	2.6	17	85	0	61	43	15	13	27	1.85
4642331--4642372	15	2.8	16	78	10	52	11	33	0	54	1.37
4644877--4644982	17	6.1	17	76	4	86	37	9	15	37	1.79
4651794--4651826	12	2.8	12	86	4	50	30	21	18	30	1.97
4652209--4652318	47	2.4	45	85	7	141	33	22	5	38	1.77
4656616--4656645	2	15.0	2	92	0	51	46	0	3	50	1.18
4660151--4660296	78	1.9	78	94	0	256	30	21	11	36	1.89
4664933--4664991	10	6.7	10	68	28	53	59	20	10	10	1.58
4664939--4664986	16	3.0	16	90	0	78	58	20	10	10	1.60
4664933--4664991	26	2.3	26	85	5	75	59	20	10	10	1.58
4666085--4666115	14	2.2	14	94	0	53	54	25	12	6	1.62
4666078--4666126	24	2.0	24	96	0	89	53	22	14	10	1.71
4669433--4669470	14	2.5	16	87	8	53	52	2	0	44	1.14
4670349--4670373	2	12.5	2	100	0	50	52	0	0	48	1.00
4674033--4674310	45	6.2	45	82	3	274	31	20	9	38	1.85
4674055--4674278	90	2.5	90	89	0	331	30	20	10	38	1.86
4674062--4674310	135	1.8	135	86	3	358	31	21	10	36	1.87
4674055--4674310	90	2.8	90	83	3	309	30	21	10	37	1.86
4674291--4674579	34	7.6	34	66	24	132	28	24	11	35	1.90
4674246--4674607	79	4.6	79	92	1	593	28	24	11	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4674481--4674607	45	3.1	45	69	23	150	27	25	12	33	1.92
4674246--4674607	156	2.3	157	91	1	591	28	24	11	35	1.90
4676300--4676340	7	5.9	7	91	0	64	31	26	24	17	1.97
4676342--4676404	5	12.6	5	77	12	67	6	22	50	20	1.70
4676364--4676399	9	3.9	9	85	7	54	5	22	50	22	1.70
4676342--4676404	19	3.4	19	93	4	103	6	22	50	20	1.70
4676407--4676520	19	5.9	19	72	10	88	28	24	23	22	1.99
4676407--4676518	38	2.9	38	78	11	111	29	25	24	21	1.99
4677521--4677572	22	2.5	20	84	9	61	28	26	15	28	1.96
4677597--4677672	21	3.6	21	74	15	75	26	25	17	31	1.97
4679834--4679858	2	12.5	2	100	0	50	48	0	0	52	1.00
4682121--4682327	45	4.6	45	78	9	199	30	17	10	41	1.83
4682113--4682331	89	2.4	90	84	3	282	29	17	10	42	1.82
4682258--4682367	45	2.4	45	80	5	116	30	22	8	38	1.84
4682113--4682367	90	2.8	91	82	4	214	29	19	9	41	1.84
4682301--4682671	79	4.7	79	86	2	503	29	22	9	39	1.85
4682506--4682638	34	3.6	34	69	23	106	30	19	9	40	1.84
4686596--4686635	19	2.1	19	90	0	62	52	7	5	35	1.51
4695116--4695154	20	2.0	20	94	0	69	28	20	25	25	1.99
4702018--4702075	13	4.5	13	95	0	98	31	12	22	34	1.91
4702011--4702066	26	2.2	26	90	0	85	35	8	21	33	1.85
4701882--4702041	85	1.9	85	84	5	216	29	15	19	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4706170--4706195	2	13.0	2	100	0	52	50	0	0	50	1.00
4710036--4710138	43	2.4	43	87	6	138	37	18	17	26	1.93
4715932--4715970	16	2.4	17	87	8	55	46	7	2	43	1.46
4719670--4719708	20	2.0	20	94	0	69	46	12	5	35	1.65
4719571--4720006	197	2.2	197	89	1	642	40	11	15	31	1.83
4726083--4726270	95	2.0	95	89	6	292	31	13	25	29	1.94
4726084--4726304	95	2.3	95	85	6	288	32	14	25	28	1.95
4726633--4726924	59	5.0	59	90	0	451	33	11	18	36	1.87
4727334--4727424	45	2.0	45	87	4	130	47	5	21	25	1.72
4728803--4728855	19	2.5	22	80	17	60	24	16	16	41	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23