genome.fa.s8041.2.7.7.80.10.50.1000.20.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: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4970990

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

This is table  20  of  21  ( 2430 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)
4624771--4624886	50	2.3	51	80	5	130	37	0	35	25	1.62
4624926--4625025	6	16.7	6	77	8	78	11	1	40	48	1.45
4624920--4625032	24	4.7	23	76	12	102	10	1	39	47	1.48
4624920--4625025	18	5.9	18	79	0	86	11	0	40	47	1.46
4625667--4625802	61	2.2	61	92	0	218	35	9	6	48	1.62
4625697--4625787	20	4.4	20	68	23	64	32	9	6	50	1.61
4625893--4625947	18	2.8	18	86	10	65	43	5	9	41	1.59
4625858--4625954	18	5.6	17	73	22	62	43	6	7	43	1.57
4625908--4625960	18	2.9	18	83	5	63	47	5	7	39	1.56
4626021--4626119	27	3.7	27	86	0	135	49	3	6	41	1.43
4628382--4628521	28	5.9	22	83	12	113	36	28	19	15	1.92
4628425--4628595	28	6.4	28	88	9	275	38	28	15	17	1.90
4628404--4628580	49	3.4	51	79	17	165	38	28	16	16	1.91
4628404--4628577	77	2.3	77	98	0	339	37	28	16	16	1.91
4628476--4628522	21	2.4	19	86	13	76	34	29	19	17	1.94
4632539--4632628	21	3.9	22	80	15	101	35	27	20	16	1.94
4632575--4632653	28	2.8	28	94	0	131	39	27	15	17	1.90
4636345--4636387	21	2.0	21	90	0	68	39	25	16	18	1.91
4643208--4643248	21	2.0	21	95	0	73	46	21	4	26	1.72
4645479--4645518	18	2.3	18	91	4	64	25	20	20	35	1.96
4645491--4645608	46	2.6	46	85	8	152	27	20	18	33	1.96
4660691--4660769	23	3.5	23	72	10	74	29	25	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4662252--4662342	27	3.4	27	87	0	128	15	39	13	31	1.86
4663395--4663545	65	2.3	65	85	5	191	29	21	17	31	1.96
4663608--4663663	21	2.7	21	94	0	94	25	28	19	26	1.99
4671181--4671227	18	2.5	19	89	3	69	55	8	29	6	1.55
4680636--4680860	114	2.0	116	88	5	341	47	8	10	33	1.68
4687522--4687565	21	2.0	22	86	4	63	29	4	4	61	1.36
4690747--4690774	14	2.0	14	100	0	56	21	14	0	64	1.29
4694230--4694261	7	4.6	7	96	0	55	75	0	3	21	0.95
4694258--4694291	17	1.9	17	88	5	50	79	0	11	8	0.94
4695481--4695814	137	2.5	134	83	7	371	36	16	22	24	1.94
4695464--4696076	132	4.6	136	78	10	506	35	16	22	26	1.95
4695200--4696140	131	7.1	135	75	12	677	35	16	21	26	1.95
4699862--4700121	129	2.0	128	98	1	504	19	17	14	48	1.80
4700905--4700946	2	21.0	2	95	0	75	50	2	0	47	1.14
4703491--4703531	21	2.0	21	90	0	64	19	17	26	36	1.94
4704835--4704882	21	2.3	21	96	0	87	35	12	12	39	1.81
4715790--4715825	17	2.1	18	89	5	56	27	8	16	47	1.75
4718460--4718485	12	2.2	12	100	0	52	57	7	7	26	1.54
4722190--4722305	61	1.9	61	87	0	169	25	18	25	31	1.97
4730153--4730190	14	2.8	14	84	4	51	26	44	0	28	1.54
4734872--4735002	45	2.9	45	90	3	212	32	22	7	37	1.83
4738738--4738769	16	1.9	17	93	6	57	50	0	15	34	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4740301--4740340	17	2.4	17	91	0	62	32	17	7	42	1.77
4741870--4742008	64	2.2	64	78	11	142	28	18	20	31	1.97
4744646--4744738	44	2.2	43	83	11	111	23	19	25	31	1.98
4747917--4747942	13	2.0	13	100	0	52	15	15	23	46	1.83
4750480--4750640	66	2.5	66	86	6	213	27	19	22	30	1.98
4753983--4754026	23	1.9	23	90	9	72	70	4	4	20	1.23
4754677--4755707	513	2.0	513	99	0	2017	32	16	17	33	1.93
4760145--4760182	20	1.9	20	94	0	67	44	13	5	36	1.66
4760385--4760427	17	2.5	17	88	0	59	23	9	4	62	1.44
4760576--4760675	47	2.1	47	90	0	155	37	23	14	26	1.92
4766311--4766360	16	3.2	15	78	13	57	68	2	0	30	1.01
4767617--4767644	3	9.3	3	100	0	56	64	0	0	35	0.94
4775344--4775388	18	2.4	19	88	7	65	60	4	6	28	1.42
4779275--4779305	9	3.6	9	91	8	55	54	0	22	22	1.44
4787192--4787237	11	4.3	11	78	13	51	52	0	6	41	1.27
4787196--4787237	20	2.0	21	86	4	59	50	0	7	42	1.30
4788275--4788312	20	1.9	20	88	0	58	18	23	28	28	1.98
4813225--4813272	25	1.9	25	91	0	78	33	0	35	31	1.58
4813224--4813279	25	2.2	24	84	9	76	35	1	32	30	1.68
4813777--4813801	13	1.9	13	100	0	50	40	8	12	40	1.72
4814563--4814612	18	2.9	17	75	18	50	38	8	14	40	1.75
4814985--4815445	81	5.7	81	89	0	636	34	12	23	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4815192--4815233	22	1.9	22	85	0	57	38	7	23	30	1.82
4816493--4816548	19	2.9	19	91	0	85	30	26	10	32	1.90
4819209--4819457	108	2.3	109	88	3	378	25	16	23	34	1.95
4819388--4819500	43	2.6	43	97	0	208	27	18	21	32	1.97
4819209--4819718	260	2.0	261	90	1	801	25	16	23	35	1.95
4819281--4819610	152	2.2	150	89	1	498	27	16	21	35	1.94
4819431--4819795	109	3.4	108	90	1	586	24	15	23	36	1.93
4819871--4820229	146	2.4	147	87	0	513	26	15	22	35	1.94
4820162--4820328	63	2.6	63	85	2	210	28	14	20	36	1.92
4823854--4823935	22	3.9	20	77	16	76	70	2	4	21	1.18
4823859--4823935	10	7.2	10	72	16	57	71	2	5	20	1.18
4825223--4825311	44	2.0	43	83	10	110	32	15	23	28	1.95
4825239--4825359	44	2.8	44	79	3	120	31	17	24	26	1.97
4830803--4830916	41	2.7	40	77	11	104	34	21	17	26	1.96
4831328--4831437	41	2.7	42	90	4	172	36	18	13	31	1.90
4838343--4838378	2	18.0	2	100	0	72	50	0	0	50	1.00
4838921--4838953	16	2.1	16	100	0	66	51	12	0	36	1.39
4843349--4843383	17	2.1	16	89	5	52	60	2	0	37	1.12
4845330--4845405	30	2.5	31	80	2	82	39	15	2	42	1.61
4848608--4848648	12	3.4	12	78	21	50	24	0	19	56	1.42
4848696--4848729	2	17.0	2	90	0	50	52	2	0	44	1.16
4848739--4848782	21	2.2	20	83	4	52	29	0	11	59	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4854419--4854460	20	2.1	20	82	8	50	38	4	0	57	1.20
4854610--4854683	21	3.4	21	71	17	62	43	2	0	54	1.14
4865352--4865397	23	2.0	23	83	8	58	39	8	0	52	1.33
4865731--4865787	25	2.3	25	82	11	73	36	0	1	61	1.07
4866820--4866859	18	2.2	17	86	13	53	67	0	17	15	1.23
4866832--4866915	18	4.6	19	71	22	65	71	0	13	15	1.15
4867956--4867992	7	5.7	7	84	15	53	75	0	0	24	0.80
4867956--4867992	12	2.9	14	80	19	53	75	0	0	24	0.80
4867958--4867998	19	2.2	19	91	8	66	78	0	0	21	0.76
4867966--4868000	14	2.5	14	90	9	54	80	0	0	20	0.72
4868006--4868324	35	8.6	38	71	13	148	43	5	3	47	1.43
4868005--4868146	73	1.9	73	84	2	187	44	5	2	47	1.41
4868006--4868415	39	10.9	38	71	17	211	43	6	3	47	1.45
4869057--4870265	84	14.5	84	83	2	1421	22	18	24	33	1.97
4869062--4870265	168	7.2	168	88	2	1627	23	18	24	33	1.97
4871439--4871618	88	2.0	88	90	0	279	31	19	16	33	1.94
4875171--4875279	4	24.8	4	72	23	53	72	0	8	18	1.14
4875170--4875240	32	2.3	31	85	7	90	69	0	11	19	1.19
4875234--4875306	29	2.5	29	80	12	78	76	2	6	13	1.09
4875253--4875370	14	8.8	13	69	17	50	74	1	6	16	1.11
4875312--4875339	14	2.0	14	100	0	56	71	0	14	14	1.15
4875257--4875392	57	2.5	54	82	15	156	72	1	8	16	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4876651--4876736	39	2.2	39	83	2	111	44	8	2	45	1.46
4876681--4876828	34	4.4	34	74	13	135	41	7	4	47	1.50
4876681--4876828	68	2.2	69	84	7	187	41	7	4	47	1.50
4883570--4883606	16	2.3	16	90	0	56	32	2	0	64	1.07
4884138--4884165	2	14.0	2	100	0	56	50	0	0	50	1.00
4885233--4885268	15	2.3	16	90	4	56	36	2	0	61	1.11
4886508--4886548	17	2.2	19	87	12	59	53	0	2	43	1.13
4890158--4890218	23	2.7	23	81	0	77	19	24	26	29	1.99
4890656--4890708	2	26.5	2	100	0	106	49	0	0	50	1.00
4893890--4893925	18	2.0	18	100	0	72	50	5	16	27	1.68

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