genome.fa.s7984.2.7.7.80.10.50.1000.23.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   63   64   
          65   

This is table  23  of  65  ( 7696 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)
4482470--4482524	22	2.5	22	87	0	74	38	12	25	23	1.90
4482596--4482691	30	3.2	30	90	0	156	31	23	19	25	1.98
4483999--4484045	22	2.2	22	88	3	69	31	10	0	57	1.33
4493813--4493848	18	2.1	18	94	5	65	63	2	0	33	1.08
4501530--4501592	20	3.2	20	86	6	83	25	25	20	28	1.99
4501537--4501603	20	3.4	19	81	8	71	28	20	22	28	1.99
4504157--4504209	28	2.0	27	85	10	74	37	24	1	35	1.67
4507085--4507134	3	16.7	3	95	0	91	0	34	2	64	1.05
4510144--4510168	12	2.1	12	100	0	50	44	8	24	24	1.80
4511973--4512013	21	2.0	20	90	4	64	43	0	7	48	1.30
4511981--4512015	17	2.1	16	89	5	52	45	0	2	51	1.16
4511966--4512015	25	1.9	25	84	8	64	46	0	6	48	1.27
4512033--4512066	11	2.9	11	91	8	50	20	0	8	70	1.13
4516804--4516833	15	1.9	16	93	6	53	40	3	0	56	1.16
4522376--4522457	42	2.0	42	87	0	119	26	19	24	29	1.98
4522533--4523128	226	2.6	225	78	2	604	31	19	19	29	1.96
4523386--4523461	2	40.5	2	75	21	67	44	0	2	52	1.14
4523476--4523501	12	2.2	12	100	0	52	15	0	0	84	0.62
4525938--4526074	32	4.3	32	77	3	123	40	12	15	32	1.84
4531139--4531201	29	2.3	27	86	13	85	44	0	3	52	1.17
4531340--4531379	19	2.0	20	85	9	55	60	2	7	30	1.38
4532807--4532877	3	23.7	3	83	11	83	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4533114--4533737	112	5.6	112	92	0	989	28	20	14	37	1.91
4534900--4534948	16	2.8	17	78	12	55	46	6	10	36	1.63
4535301--4535399	9	10.9	9	79	15	89	1	18	0	80	0.76
4535301--4535395	28	3.4	29	84	11	119	1	17	0	81	0.76
4535301--4535400	22	4.6	21	82	9	96	1	19	0	80	0.78
4542700--4542731	15	2.1	15	94	0	55	46	9	18	25	1.79
4546526--4546590	29	2.4	29	82	10	75	46	0	3	50	1.17
4546646--4546687	20	2.2	19	86	4	57	64	2	0	33	1.07
4546579--4546813	120	2.0	117	81	7	278	47	8	8	35	1.66
4546880--4546921	3	14.0	3	94	0	75	64	0	2	33	1.07
4547795--4547837	19	2.1	21	83	8	54	0	18	4	76	0.95
4548269--4548356	6	13.8	6	81	13	81	59	0	0	40	0.98
4548280--4548317	2	20.5	2	84	15	55	55	0	0	44	0.99
4548271--4548356	15	5.6	15	79	17	97	59	0	0	40	0.97
4550729--4550785	24	2.3	25	81	9	71	54	8	7	29	1.58
4550739--4550786	24	2.0	24	91	0	78	52	8	8	31	1.61
4551801--4551859	29	2.0	29	100	0	118	23	13	13	49	1.78
4556471--4556529	29	2.0	29	100	0	118	23	13	13	49	1.78
4558148--4558211	23	2.7	24	78	7	60	45	1	0	53	1.10
4558508--4558595	28	2.8	31	74	20	85	55	3	0	40	1.16
4559716--4559914	43	4.7	43	76	7	163	25	22	22	30	1.99
4559716--4559917	86	2.4	86	79	5	196	25	21	22	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4560342--4560414	21	3.4	21	74	10	67	2	39	17	39	1.64
4560379--4560419	21	2.0	21	95	0	73	0	43	14	41	1.45
4563134--4563168	14	2.5	14	100	0	70	31	8	17	42	1.79
4564188--4564315	42	3.1	42	82	7	136	40	23	10	25	1.87
4564342--4564458	41	2.9	41	85	0	144	30	22	18	28	1.97
4564813--4564851	18	2.2	18	90	0	60	51	17	0	30	1.46
4565756--4565797	22	1.9	22	85	0	57	30	9	11	47	1.72
4566216--4566519	82	3.7	82	76	11	250	33	21	15	29	1.94
4566278--4566495	40	5.3	41	70	16	139	32	21	15	30	1.94
4570127--4570180	28	1.9	28	85	7	74	61	5	0	33	1.19
4572141--4572189	3	16.7	3	87	12	75	65	0	0	34	0.93
4572713--4572754	15	2.7	15	82	17	59	59	0	40	0	0.97
4573703--4573813	32	3.7	32	69	16	101	49	18	4	27	1.66
4573710--4573941	58	3.8	59	80	12	224	52	14	6	26	1.66
4573821--4573961	65	2.2	63	89	5	212	54	15	4	24	1.61
4573821--4573906	34	2.6	35	74	20	87	55	15	4	24	1.58
4573710--4573940	124	1.9	117	83	9	295	52	14	6	26	1.66
4582374--4582403	3	10.0	3	92	0	51	36	0	0	63	0.95
4588669--4588780	46	2.4	46	90	0	188	34	20	8	36	1.82
4588855--4588934	40	2.0	40	82	0	97	26	25	21	27	1.99
4590648--4590850	97	2.1	97	91	0	325	35	18	5	40	1.75
4592878--4592924	24	2.0	23	87	4	67	53	0	4	42	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4594071--4594125	16	3.4	16	80	9	67	23	25	12	38	1.90
4594378--4594421	23	1.9	23	95	0	79	45	2	2	50	1.27
4594408--4594445	20	1.9	20	84	10	51	57	0	5	36	1.21
4594589--4594648	7	8.7	7	90	1	68	15	0	26	58	1.37
4595116--4595169	20	2.7	20	82	8	65	18	0	27	53	1.45
4594718--4595701	480	2.1	477	90	3	1565	35	9	12	43	1.74
4595590--4595654	7	9.3	7	77	0	67	20	0	30	49	1.49
4595730--4596019	139	2.1	139	98	0	562	32	6	16	44	1.73
4596049--4596217	2	87.0	2	64	18	63	45	6	2	45	1.42
4596409--4596465	19	2.9	20	80	15	73	28	24	0	47	1.52
4596598--4596760	2	82.5	2	66	22	69	45	3	3	47	1.38
4596600--4596760	13	11.4	14	76	16	104	45	3	3	47	1.38
4598435--4598498	2	32.0	2	100	0	128	50	0	0	50	1.00
4601347--4601421	34	2.1	35	92	4	125	32	9	8	50	1.63
4606584--4606701	60	2.0	60	81	6	141	34	15	15	34	1.89
4611415--4611449	6	5.8	6	96	0	61	34	51	0	14	1.42
4614455--4614494	20	2.0	20	90	9	64	42	35	12	10	1.76
4627188--4627232	19	2.3	19	84	7	54	24	11	26	37	1.89
4638509--4638548	17	2.4	17	95	0	71	20	20	35	25	1.96
4647232--4647328	24	4.0	24	82	9	108	23	22	13	40	1.89
4652937--4652966	15	2.0	15	93	0	51	56	6	16	20	1.62
4664569--4664613	21	2.1	21	91	0	72	28	17	11	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4674115--4674175	26	2.3	26	94	0	113	21	39	3	36	1.70
4674780--4674837	21	2.7	21	86	7	64	22	24	22	31	1.99
4674793--4674837	22	2.1	22	92	8	76	17	28	20	33	1.95
4676691--4676721	2	15.5	2	100	0	62	51	0	0	48	1.00
4680228--4680262	14	2.5	14	100	0	70	48	5	17	28	1.69
4685411--4685445	12	2.9	12	91	0	52	34	11	28	25	1.91
4685999--4686084	39	2.2	39	91	0	145	33	9	22	34	1.86
4687459--4687535	21	3.6	21	73	7	57	25	23	15	35	1.94
4689835--4689875	21	2.0	21	100	0	82	24	26	24	24	2.00
4689839--4689896	21	2.8	21	86	5	73	29	24	24	22	1.99
4692440--4692473	12	2.7	13	86	9	52	44	8	5	41	1.60
4697728--4697772	23	2.0	23	87	12	67	26	0	2	71	0.98
4698944--4699076	70	1.9	72	84	6	182	44	9	6	39	1.64
4702828--4702950	40	3.1	40	89	0	192	24	15	26	33	1.95
4703477--4703533	30	1.9	30	85	0	78	29	15	21	33	1.94
4718048--4718073	12	2.2	12	100	0	52	80	0	19	0	0.71
4718963--4719012	21	2.4	20	80	9	55	38	22	14	26	1.91
4719940--4719965	7	3.7	7	100	0	52	26	46	26	0	1.53
4721053--4721262	10	19.1	10	64	17	60	15	8	2	74	1.15
4721122--4721217	5	18.4	5	68	15	52	16	7	2	73	1.14
4721108--4721197	22	4.1	22	66	11	58	13	5	3	77	1.06
4721128--4721178	19	2.7	20	78	12	61	15	3	3	76	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4726907--4726962	27	1.9	28	86	13	78	39	3	1	55	1.28
4726912--4726973	30	2.2	27	82	8	70	43	3	1	51	1.27
4727023--4727063	14	2.7	15	88	7	57	48	0	0	51	1.00
4727204--4727301	41	2.5	40	77	11	101	46	2	0	51	1.12
4727574--4727599	2	13.0	2	100	0	52	50	0	0	50	1.00
4729874--4729933	25	2.4	24	81	13	68	35	15	3	46	1.62
4730437--4730473	15	2.5	15	90	0	56	24	13	16	45	1.83
4731395--4731451	2	30.0	2	77	22	61	50	1	1	45	1.22
4731441--4731507	23	3.1	21	79	12	82	43	1	8	46	1.44
4731581--4731646	20	3.3	20	78	14	73	46	1	7	43	1.41

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   63   64   
          65