genome.fa.s190.2.7.7.80.10.50.1000.20.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  20  of  62  ( 7381 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)
4687758--4687804	16	2.7	18	90	9	71	53	8	6	31	1.57
4688134--4688178	6	7.5	6	80	9	56	0	20	0	80	0.72
4688134--4688183	17	2.7	19	73	17	52	0	20	0	80	0.72
4699489--4699541	28	2.0	28	82	14	67	49	1	0	49	1.12
4700872--4700907	11	3.2	11	92	4	54	36	0	2	61	1.11
4700903--4701062	3	54.7	3	88	7	240	63	0	1	35	1.06
4700903--4701062	32	5.0	32	90	5	180	63	0	1	35	1.06
4707637--4707668	16	2.0	16	93	0	55	34	25	6	34	1.81
4709359--4709407	3	16.3	3	95	0	89	32	2	0	65	1.04
4709365--4709448	18	4.4	20	80	14	65	41	2	0	55	1.12
4710757--4710792	19	1.9	19	94	5	65	22	0	5	72	1.05
4722068--4722108	1	41.0	1	90	0	64	95	0	4	0	0.28
4722068--4722108	19	2.2	19	100	0	82	95	0	4	0	0.28
4722068--4722113	12	3.7	13	91	2	60	91	0	8	0	0.43
4723248--4723790	84	6.6	84	95	1	933	28	13	22	36	1.92
4724542--4725958	113	12.5	112	92	3	2113	37	14	19	29	1.90
4724526--4725958	454	3.2	454	93	2	2363	37	14	18	29	1.90
4724542--4725958	229	6.3	226	91	3	2205	37	14	19	29	1.90
4726095--4726150	3	19.3	3	89	7	89	33	1	0	64	1.04
4727505--4727540	19	1.9	19	94	5	65	22	0	5	72	1.05
4727569--4727608	20	2.0	21	85	5	55	37	2	2	57	1.26
4728303--4728349	22	2.1	22	88	7	69	46	10	21	21	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4729368--4729442	31	2.4	31	88	0	105	32	10	12	45	1.75
4729780--4729826	13	3.8	12	75	13	51	27	0	2	70	0.99
4730178--4730237	21	2.8	19	83	14	66	36	6	1	55	1.36
4730236--4730291	28	1.9	29	85	7	78	37	3	0	58	1.15
4734522--4734568	15	3.5	15	68	31	52	65	0	29	4	1.11
4734519--4734572	24	2.2	24	100	0	108	66	0	29	3	1.09
4735728--4735807	39	2.1	39	83	9	101	40	2	0	57	1.12
4736688--4736756	30	2.2	30	80	15	86	33	5	18	42	1.75
4736697--4736756	30	2.0	30	90	6	95	31	6	18	43	1.76
4736934--4737082	20	7.3	20	82	3	172	18	28	22	30	1.98
4736992--4737070	21	3.8	21	83	3	115	20	27	25	26	1.99
4736934--4737082	61	2.5	60	82	3	181	18	28	22	30	1.98
4736934--4737082	41	3.7	41	89	0	210	18	28	22	30	1.98
4737201--4737240	20	1.9	21	85	10	55	40	37	10	12	1.77
4737455--4737524	34	2.1	32	81	5	77	32	15	27	24	1.95
4737881--4737959	31	2.5	31	85	4	97	30	3	5	60	1.36
4737902--4737989	31	2.7	32	84	10	108	26	4	6	62	1.40
4738033--4738090	29	2.0	29	90	6	91	34	12	10	43	1.76
4743103--4743159	18	3.2	17	78	14	62	38	21	7	33	1.80
4743708--4743741	17	2.0	17	88	0	50	32	26	11	29	1.92
4744181--4744223	20	2.2	20	100	0	86	27	18	20	32	1.96
4747088--4747286	44	4.5	44	92	0	290	29	19	17	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4747215--4747279	21	3.0	21	66	22	53	32	18	15	33	1.92
4751127--4751347	117	1.9	117	84	5	295	29	14	8	47	1.73
4773258--4773335	39	2.0	39	80	9	88	26	12	23	37	1.91
4775059--4775132	37	2.0	37	82	12	91	50	4	1	44	1.29
4778398--4778449	9	5.3	10	82	13	72	13	19	30	36	1.90
4778464--4778510	18	2.7	17	87	6	67	19	42	19	19	1.89
4778535--4778601	29	2.3	29	89	0	98	22	10	26	40	1.86
4785645--4785696	9	5.3	10	82	13	72	13	19	30	36	1.90
4785703--4785753	18	2.9	17	91	5	84	17	47	19	15	1.83
4785731--4785773	13	3.3	12	84	12	50	16	39	25	18	1.91
4785774--4785840	29	2.3	29	89	0	98	22	10	26	40	1.86
4790716--4790798	3	27.0	3	82	4	103	60	1	0	38	1.05
4791151--4791248	17	5.4	17	69	25	67	19	20	7	53	1.68
4791167--4791283	40	2.9	40	92	1	189	18	21	8	51	1.73
4791040--4791401	185	1.9	190	87	4	536	24	18	11	45	1.83
4791223--4791998	113	6.8	113	90	2	1139	27	19	14	38	1.91
4791223--4792000	225	3.4	226	89	1	1175	27	19	14	38	1.91
4791226--4791998	338	2.3	340	90	2	1232	27	19	14	38	1.91
4792727--4793027	83	3.6	83	98	0	584	39	21	13	25	1.90
4794174--4794233	8	6.9	8	77	22	59	0	18	0	81	0.69
4794175--4794237	9	6.9	10	80	14	66	0	19	0	80	0.70
4794185--4794236	14	3.7	15	82	12	74	0	17	0	82	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4794175--4794233	20	3.3	18	80	13	68	0	16	0	83	0.66
4801560--4801591	15	2.1	15	94	0	55	46	9	18	25	1.79
4807095--4807172	3	25.7	3	83	7	86	58	1	0	39	1.06
4807095--4807173	29	2.6	29	86	6	104	58	1	0	40	1.06
4807619--4807648	15	2.0	15	100	0	60	46	26	13	13	1.80
4814614--4814640	2	13.5	2	100	0	54	48	0	0	51	1.00
4815451--4815481	3	10.3	3	92	0	53	35	3	0	61	1.12
4819816--4819848	15	2.3	15	89	5	50	27	0	3	69	1.03
4820680--4820727	23	2.1	23	100	0	96	45	12	0	41	1.42
4824817--4824861	23	2.0	23	86	0	63	28	0	20	51	1.48
4826067--4826104	18	2.2	18	85	4	51	10	10	5	73	1.23
4826131--4826185	5	11.0	5	83	11	60	16	7	0	76	1.00
4827139--4827171	11	3.0	11	100	0	66	18	9	18	54	1.69
4827575--4827626	20	2.6	20	81	6	70	15	5	1	76	1.05
4835867--4835916	25	2.0	25	96	0	91	36	6	24	34	1.80
4835871--4835924	25	2.2	25	89	0	81	33	5	22	38	1.77
4837703--4837752	21	2.4	20	80	9	64	26	14	20	40	1.90
4849695--4849734	21	2.0	21	95	5	73	45	0	20	35	1.51
4850288--4850347	28	2.1	28	84	6	77	38	3	0	58	1.15
4853167--4853238	17	4.2	17	83	5	83	37	13	8	40	1.75
4855114--4855148	18	1.9	18	88	0	52	8	2	31	57	1.44
4856880--4856968	17	5.2	17	83	4	63	39	14	7	38	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4858137--4858201	18	3.6	18	93	0	94	38	38	6	16	1.74
4858140--4858197	18	3.2	18	95	0	98	36	41	6	15	1.74
4862426--4862465	19	2.0	21	85	9	57	52	2	10	35	1.48
4863904--4863938	18	1.9	18	100	0	70	28	22	17	31	1.96
4869742--4869786	18	2.4	19	82	14	58	26	4	2	66	1.22
4870038--4870092	3	19.7	3	79	20	50	25	3	0	70	1.03
4870029--4870068	16	2.4	17	87	8	55	22	2	0	75	0.93
4874018--4874069	9	5.7	9	80	13	61	86	5	7	0	0.70
4874011--4874062	20	2.6	20	87	0	77	86	5	7	0	0.70
4875650--4875772	36	3.4	36	82	7	160	24	21	13	40	1.89
4875748--4875915	67	2.5	68	83	6	200	32	22	8	36	1.84
4876509--4876852	105	3.3	105	89	4	502	32	26	18	22	1.97
4877997--4878039	18	2.5	17	85	7	61	25	4	2	67	1.22
4878279--4878348	21	3.4	20	75	11	61	25	2	0	71	1.00
4878289--4878348	32	1.9	31	86	10	86	25	3	0	71	1.01
4880149--4880204	25	2.2	25	82	17	64	66	7	1	25	1.27
4880860--4881021	81	2.0	80	90	4	254	35	4	6	52	1.50
4881214--4881256	2	21.5	2	95	0	77	48	2	0	48	1.14
4883729--4883765	15	2.5	15	100	0	74	37	5	18	37	1.74
4883738--4883771	15	2.3	15	89	0	50	38	2	17	41	1.65
4887374--4887476	42	2.4	42	78	4	107	28	19	21	31	1.97
4887532--4887630	41	2.3	44	80	15	127	20	22	24	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4887536--4887642	42	2.5	42	78	4	117	21	20	24	33	1.97
4888073--4888156	21	4.0	21	80	6	89	2	36	17	42	1.63
4899892--4900048	42	3.8	41	75	7	129	28	18	15	36	1.92
4903227--4903351	31	4.0	31	76	9	128	30	19	18	32	1.95
4903338--4903409	30	2.4	30	90	0	108	25	20	23	30	1.99
4906561--4906651	29	3.0	29	90	4	128	35	13	9	41	1.77
4911341--4911422	29	2.8	29	92	1	128	32	14	10	41	1.81
4913315--4913339	6	4.2	6	100	0	50	48	20	16	16	1.82
4913738--4914026	144	2.0	144	98	0	560	49	11	15	23	1.78
4914383--4914458	35	2.2	35	92	0	125	39	23	1	35	1.63

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   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62