genome.fa.s8027.2.7.7.80.10.50.1000.22.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  22  of  38  ( 4505 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)
4630128--4630184	14	3.7	14	75	20	60	8	24	22	43	1.81
4630112--4630192	33	2.5	33	95	0	144	8	22	22	46	1.78
4630169--4630244	21	3.7	21	83	3	109	11	25	17	46	1.82
4630168--4630245	41	1.9	41	97	0	147	12	25	16	44	1.83
4630324--4630394	33	2.2	33	92	0	115	47	18	22	11	1.80
4630576--4630630	22	2.5	22	81	0	74	20	16	40	23	1.91
4630777--4630930	20	7.7	20	81	7	168	18	18	26	37	1.93
4630776--4630930	40	3.8	40	82	4	186	18	18	26	37	1.93
4630897--4630973	21	3.8	20	82	5	91	19	18	23	38	1.93
4630897--4631013	20	5.7	21	75	7	98	18	17	26	37	1.93
4630897--4631013	41	2.9	41	83	6	130	18	17	26	37	1.93
4630917--4631013	42	2.4	42	84	6	119	19	16	27	36	1.93
4636550--4636593	21	2.1	21	87	8	63	36	13	11	38	1.81
4637960--4638002	18	2.4	18	80	7	52	79	0	18	2	0.85
4639964--4640240	110	2.5	111	82	9	325	35	11	16	37	1.84
4639939--4640240	57	5.4	57	82	9	322	33	10	17	38	1.85
4641231--4642029	136	5.9	136	88	1	1100	34	17	21	25	1.96
4645109--4645138	14	2.1	14	100	0	60	10	33	16	40	1.82
4649184--4649300	2	60.5	2	74	13	84	49	2	3	44	1.32
4649420--4649454	2	17.0	2	88	5	52	48	2	2	45	1.32
4650905--4651390	134	3.6	134	87	3	701	26	18	23	31	1.97
4653625--4653681	17	3.4	17	80	4	62	5	19	0	75	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4653652--4653706	20	2.7	21	76	20	62	7	16	0	76	1.00
4653969--4653994	2	13.0	2	100	0	52	50	0	0	50	1.00
4661028--4661083	2	29.0	2	92	7	98	51	0	0	48	1.00
4662995--4663055	28	2.1	29	93	3	106	37	8	13	40	1.74
4663971--4664017	8	5.6	8	80	16	51	70	4	4	21	1.22
4668243--4668282	14	2.9	14	88	0	53	37	0	22	40	1.54
4668718--4668748	10	3.1	10	95	0	53	54	19	25	0	1.44
4670580--4670677	3	32.7	3	93	0	169	33	1	1	64	1.07
4670673--4670713	11	3.8	10	87	9	55	56	2	0	41	1.13
4671111--4671137	14	1.9	14	100	0	54	51	14	33	0	1.43
4672855--4672891	15	2.7	15	88	12	53	24	5	8	62	1.44
4683502--4683554	1	53.0	1	92	0	88	96	0	3	0	0.23
4683867--4683911	16	2.8	16	83	10	56	28	8	6	55	1.56
4684713--4685214	83	6.0	83	96	0	887	27	13	21	37	1.91
4686010--4686561	114	4.8	114	92	1	752	38	12	19	29	1.89
4686887--4686953	3	22.7	3	87	3	100	34	1	1	62	1.13
4687399--4687425	14	1.9	14	100	0	54	51	14	33	0	1.43
4687494--4687535	15	2.8	15	85	7	50	73	2	21	2	1.06
4687494--4687535	20	2.1	20	86	8	59	73	2	21	2	1.06
4689660--4689738	21	3.7	21	72	14	72	39	3	1	55	1.26
4689648--4689748	42	2.4	42	80	9	125	37	4	0	56	1.28
4689843--4689870	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4690021--4690093	29	2.5	28	80	6	83	52	1	6	39	1.37
4693141--4693195	7	8.1	7	89	2	78	0	43	0	56	0.99
4694708--4694872	21	7.6	21	76	8	168	35	25	18	20	1.96
4694683--4694872	65	2.9	65	84	3	238	34	25	18	21	1.96
4698966--4699077	23	5.0	23	80	4	129	36	25	16	20	1.94
4698966--4699077	44	2.5	46	77	10	131	36	25	16	20	1.94
4698969--4699094	67	1.9	67	88	0	189	35	26	16	21	1.94
4706427--4706486	21	2.8	21	85	10	68	23	35	25	16	1.95
4706870--4706899	2	15.0	2	100	0	60	50	0	0	50	1.00
4710317--4710367	2	25.5	2	100	0	102	49	0	0	50	1.00
4710805--4710857	3	16.0	3	78	18	52	62	1	32	3	1.24
4711511--4711548	18	2.1	18	95	0	67	0	10	2	86	0.66
4711510--4711548	10	4.1	10	83	12	55	0	10	2	87	0.65
4716073--4716125	23	2.3	23	83	0	70	60	13	15	11	1.59
4717595--4717632	17	2.2	17	86	9	51	60	0	7	31	1.25
4717600--4717674	24	2.9	25	71	9	62	60	0	5	34	1.20
4717980--4718053	30	2.5	30	97	0	139	31	16	9	43	1.79
4722058--4722327	80	3.4	80	85	1	353	27	17	16	38	1.91
4722058--4722510	177	2.7	160	78	11	505	27	17	16	38	1.91
4722303--4722344	17	2.5	17	100	0	84	26	19	4	50	1.67
4722143--4722503	177	2.0	176	88	0	533	27	17	16	39	1.91
4722226--4722424	97	2.1	97	84	0	254	28	17	15	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4722323--4722509	79	2.4	79	89	0	275	27	18	16	38	1.91
4729179--4729226	13	3.7	13	100	0	96	31	20	14	33	1.93
4729305--4729359	2	27.5	2	100	0	110	49	0	0	50	1.00
4729563--4729591	10	2.9	10	100	0	58	58	0	10	31	1.31
4733846--4734059	45	4.7	45	84	3	277	29	21	11	36	1.89
4733848--4734096	91	2.8	90	84	5	299	28	23	11	36	1.90
4733847--4734096	45	5.5	44	83	5	263	28	23	11	36	1.90
4734566--4734666	21	4.8	21	88	7	143	21	25	18	33	1.97
4734613--4734835	95	2.3	95	78	9	213	27	24	17	31	1.97
4735465--4735489	2	12.5	2	100	0	50	52	0	0	48	1.00
4740974--4741191	45	4.8	45	82	3	267	28	20	11	39	1.87
4740974--4741191	91	2.4	90	82	2	267	28	20	11	39	1.87
4741705--4741763	21	2.7	21	80	14	66	22	27	18	32	1.97
4742391--4742430	20	2.0	20	95	4	73	32	15	2	50	1.57
4751320--4751386	19	3.5	19	93	0	107	37	13	8	40	1.76
4751451--4751510	29	2.0	31	87	6	88	41	15	6	36	1.73
4762567--4762611	15	2.9	15	80	6	54	42	0	6	51	1.28
4767555--4767603	2	25.0	2	81	4	55	44	2	2	51	1.24
4769488--4769533	24	1.9	24	90	0	74	26	0	8	65	1.21
4771305--4771338	9	3.7	9	84	7	50	14	26	32	26	1.95
4771304--4771354	19	2.7	19	90	0	75	19	25	29	25	1.99
4771458--4771505	25	1.9	25	91	0	78	37	4	8	50	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4771395--4771572	29	6.2	29	71	9	116	33	2	17	46	1.61
4779846--4779974	60	2.2	60	81	6	147	34	18	4	42	1.71
4781458--4781490	13	2.5	13	95	0	57	27	45	12	15	1.81
4781586--4781655	23	3.2	23	61	19	58	54	22	0	22	1.45
4781571--4781665	43	2.2	43	94	0	172	53	23	3	20	1.59
4781690--4781744	23	2.4	23	96	0	101	43	41	0	14	1.45
4782181--4782351	89	1.9	89	90	2	272	25	24	7	42	1.81
4791773--4791804	11	2.9	11	100	0	64	25	56	18	0	1.42
4796727--4796780	28	1.9	28	88	0	81	29	24	9	37	1.86
4802653--4802714	23	2.7	23	84	2	70	35	22	25	16	1.94
4802647--4802714	24	2.9	24	82	2	84	32	23	25	19	1.97
4805808--4805872	18	3.6	18	95	0	112	38	6	12	43	1.67
4807436--4807475	18	2.2	18	90	0	62	82	7	0	10	0.84
4807442--4807486	18	2.4	19	85	10	58	84	4	4	6	0.87
4809373--4809417	18	2.5	18	96	0	81	33	6	15	44	1.73
4815186--4815304	3	40.3	3	96	3	224	33	0	0	66	0.92
4815503--4815559	2	29.5	2	92	7	100	47	0	0	52	1.00
4815507--4815584	8	9.9	8	83	8	61	41	2	5	51	1.38
4820380--4820441	33	1.9	33	86	3	90	35	32	22	9	1.87
4820919--4820959	21	2.0	21	85	0	55	34	17	14	34	1.90
4820963--4821011	22	2.2	22	85	0	62	26	12	16	44	1.82
4821110--4821168	29	2.0	29	100	0	118	37	16	0	45	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4827998--4828022	13	1.9	13	100	0	50	16	0	12	72	1.13
4828266--4828309	12	3.7	12	84	0	52	36	47	4	11	1.60
4830985--4831014	15	2.0	15	100	0	60	46	6	20	26	1.75
4831032--4831162	63	2.1	64	94	4	230	40	16	8	35	1.78
4843946--4843988	18	2.4	18	100	0	86	30	4	20	44	1.72
4844220--4844438	43	5.1	42	80	8	201	26	22	25	25	2.00
4844241--4844398	86	1.8	86	86	10	234	24	23	25	26	2.00
4844550--4844608	21	2.8	21	84	0	73	55	20	5	18	1.61
4846541--4846857	41	7.6	41	84	5	325	33	18	19	28	1.96
4846541--4846857	166	1.9	166	88	5	480	33	18	19	28	1.96

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