genome.fa.s8756.2.7.7.80.10.50.1000.19.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: VEPZ01008756.1 Hibiscus syriacus cultivar Beakdansim tig00111848_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4584045

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  19  of  21  ( 2443 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)
4094093--4094488	59	6.7	59	92	0	621	34	11	17	36	1.86
4095007--4095100	45	2.1	45	88	4	136	48	4	21	25	1.68
4099180--4099217	18	2.1	19	85	14	53	42	0	2	55	1.14
4105121--4105159	20	2.0	20	90	5	62	58	5	0	35	1.20
4106452--4106556	3	35.0	3	80	3	122	65	0	2	31	1.07
4106808--4107256	118	3.8	119	93	3	727	28	20	13	37	1.90
4106806--4107256	237	1.9	231	92	3	751	28	20	13	37	1.91
4107877--4108027	51	2.9	52	93	2	259	39	23	13	23	1.90
4107804--4108215	186	2.2	186	98	0	788	37	21	13	27	1.91
4108071--4108213	52	2.8	52	95	1	261	38	23	13	23	1.91
4108767--4108809	18	2.5	17	81	7	52	51	6	9	32	1.61
4109138--4109194	8	7.1	8	84	7	80	0	15	0	84	0.63
4116288--4116339	25	2.1	26	92	7	90	40	13	3	42	1.62
4118791--4119167	188	2.0	188	98	1	738	45	12	11	30	1.77
4119569--4119603	18	1.9	18	88	11	54	65	2	0	31	1.07
4120369--4120406	18	2.0	20	90	10	62	57	5	0	36	1.21
4121710--4121838	3	43.0	3	87	0	186	65	0	2	32	1.06
4121715--4121853	12	11.9	11	81	13	77	65	0	3	30	1.10
4122405--4122897	249	2.0	249	89	1	756	41	11	13	33	1.80
4135526--4135605	33	2.5	33	86	8	94	43	3	13	38	1.62
4138380--4138497	57	2.1	57	88	0	173	42	22	15	20	1.89
4140413--4140489	35	2.2	35	79	9	86	33	2	9	54	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4147606--4147667	33	1.9	33	93	3	108	41	12	16	29	1.85
4148433--4148479	21	2.2	21	81	7	60	48	6	38	6	1.54
4148850--4148959	41	2.7	41	87	1	159	30	20	20	29	1.98
4149468--4149514	23	2.0	24	87	4	69	46	6	6	40	1.55
4149836--4149887	2	26.0	2	100	0	104	50	0	0	50	1.00
4155249--4155311	24	2.6	25	78	16	71	44	0	0	55	0.99
4155341--4155377	12	3.0	12	92	4	56	10	16	54	18	1.71
4155432--4155479	25	2.0	24	83	4	60	16	47	12	22	1.80
4159628--4159708	26	3.2	26	84	5	67	24	6	18	50	1.69
4159642--4159708	26	2.6	26	90	0	98	22	7	19	50	1.72
4166494--4166523	3	10.0	3	92	0	51	0	30	36	33	1.58
4167591--4167632	16	2.4	18	80	7	52	30	0	0	69	0.89
4167593--4167652	30	2.0	31	83	9	79	35	1	0	63	1.05
4167590--4167653	27	2.5	27	81	18	68	32	1	0	65	1.02
4178384--4178426	15	2.6	16	89	10	61	30	9	2	58	1.42
4179921--4179979	15	3.8	15	76	8	55	50	0	5	44	1.24
4180906--4180996	39	2.4	38	90	5	148	29	2	6	61	1.33
4181018--4181069	16	3.2	17	72	22	58	42	0	21	36	1.53
4182142--4182192	2	26.0	2	90	4	77	50	0	0	49	1.00
4185680--4185732	24	2.2	24	100	0	106	33	11	37	16	1.85
4186826--4186907	29	2.8	29	83	0	101	24	37	20	17	1.93
4186934--4186998	32	2.0	32	100	0	130	12	30	29	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4186984--4187027	23	1.9	23	100	0	88	22	22	27	27	1.99
4187802--4187846	21	2.2	21	84	4	56	35	0	8	55	1.31
4189485--4189609	31	4.0	31	71	4	99	27	28	27	16	1.97
4189486--4189609	63	2.0	63	84	6	162	26	29	27	16	1.97
4190491--4190548	17	3.4	17	92	0	98	15	22	43	18	1.88
4190542--4190601	20	3.2	18	83	9	66	28	30	25	16	1.97
4190565--4190602	20	1.9	20	94	0	67	34	26	21	18	1.96
4190542--4190601	29	2.1	28	87	3	84	28	30	25	16	1.97
4190542--4190601	9	6.3	9	79	11	66	28	30	25	16	1.97
4196780--4196903	63	2.0	63	80	6	144	25	28	28	17	1.98
4197774--4197817	20	2.1	21	95	4	81	25	29	29	15	1.96
4197807--4197864	17	3.4	17	100	0	116	13	24	44	17	1.85
4197774--4197817	7	6.4	7	94	5	81	25	29	29	15	1.96
4197858--4197947	19	4.7	19	89	6	128	25	30	26	17	1.98
4197860--4197947	9	9.1	10	74	12	85	26	30	25	18	1.98
4200747--4201555	49	15.4	49	76	19	612	41	0	12	45	1.44
4200952--4200978	10	2.7	10	100	0	54	40	0	18	40	1.51
4200965--4201067	35	3.2	35	62	25	91	40	0	11	46	1.47
4200747--4201552	109	7.6	107	75	17	575	41	0	12	45	1.44
4200857--4201504	168	4.0	164	82	12	788	41	0	12	45	1.43
4200746--4201552	215	3.8	213	83	13	965	41	0	12	45	1.44
4201167--4201294	10	13.6	10	69	23	64	41	0	14	44	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4201178--4201379	46	4.2	46	81	15	216	41	0	12	46	1.41
4201279--4201379	45	2.2	45	89	6	152	41	0	11	46	1.41
4201358--4201392	14	2.5	14	95	0	61	40	0	17	42	1.49
4201258--4201502	123	2.1	121	85	11	321	41	0	13	45	1.43
4201224--4201569	166	2.1	168	85	9	467	41	0	13	45	1.43
4201481--4201570	14	6.6	14	70	19	57	40	0	14	45	1.45
4201524--4201569	13	3.6	13	82	14	60	36	0	17	45	1.49
4201524--4201571	24	2.0	25	91	4	80	37	0	16	45	1.48
4204235--4204281	14	3.5	13	77	11	51	2	40	0	57	1.11
4204280--4204363	26	3.3	26	94	1	143	7	35	8	48	1.61
4204306--4204354	15	3.5	15	71	21	52	8	32	8	51	1.61
4204409--4204475	33	2.0	33	94	0	116	28	28	10	32	1.90
4204652--4204731	29	2.9	29	83	7	105	16	20	41	22	1.90
4206261--4206292	7	4.6	7	96	0	55	71	3	0	25	1.00
4206257--4206319	18	3.5	17	80	10	63	63	1	0	34	1.04
4208096--4208154	29	2.0	29	96	0	109	49	13	11	25	1.76
4212985--4213205	64	3.5	63	83	4	248	33	19	19	27	1.96
4213859--4214045	31	6.0	31	92	1	295	20	17	21	40	1.92
4217302--4217522	64	3.4	63	79	6	212	33	19	19	27	1.96
4217346--4217523	64	2.8	64	83	2	214	34	19	19	26	1.96
4218157--4218281	31	4.0	31	92	2	198	19	18	22	40	1.92
4219473--4219531	29	2.0	29	100	0	118	49	13	13	23	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4221814--4221847	13	2.8	12	82	8	50	32	8	2	55	1.45
4223173--4223222	23	2.1	23	85	7	64	44	4	6	46	1.47
4230966--4231076	33	3.5	31	87	6	150	33	8	13	45	1.73
4231129--4231172	14	3.0	14	78	12	52	34	13	6	45	1.70
4231137--4231168	16	2.0	16	93	0	55	40	12	6	40	1.68
4231499--4231523	2	12.5	2	100	0	50	52	0	0	48	1.00
4234225--4234249	11	2.3	11	100	0	50	72	0	0	28	0.86
4238869--4238987	27	4.4	27	90	0	175	34	17	30	17	1.93
4240149--4240204	24	2.3	24	84	0	67	12	12	26	48	1.77
4240160--4240217	10	5.4	10	75	15	53	10	12	24	53	1.68
4240159--4240210	24	2.2	24	92	0	86	9	13	25	51	1.71
4240160--4240230	34	2.1	34	89	0	106	12	11	21	54	1.68
4241303--4241362	16	3.7	16	88	2	93	8	13	21	56	1.63
4251607--4251649	22	2.0	21	90	4	68	51	0	2	46	1.13
4251606--4251672	11	6.4	11	72	10	50	52	1	2	43	1.25
4256937--4257460	255	2.1	253	89	5	788	40	18	11	29	1.85
4257547--4257621	39	1.9	39	97	0	141	29	10	20	40	1.86
4263021--4263288	134	2.0	134	100	0	536	34	21	14	29	1.94
4264071--4264145	24	3.2	24	88	1	116	36	21	17	25	1.95
4264075--4264151	23	3.3	23	85	3	109	36	20	18	24	1.95
4264054--4264167	47	2.4	47	79	5	124	40	19	14	25	1.90
4265292--4265327	18	2.0	18	88	0	54	30	16	0	52	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4266588--4266635	10	5.6	9	85	14	50	22	22	35	18	1.96
4266589--4266660	8	9.4	8	73	25	59	20	22	40	16	1.91
4266622--4266709	13	6.5	13	81	15	99	17	19	46	17	1.84
4266643--4266682	18	2.3	17	86	4	62	10	20	50	20	1.76
4266622--4266708	43	2.0	43	91	4	140	16	19	47	17	1.83
4267779--4267889	55	2.0	57	96	3	208	26	23	26	24	2.00
4268628--4268703	36	2.1	35	90	2	116	32	28	28	9	1.88
4268791--4268859	23	3.0	23	86	2	102	36	21	18	23	1.95
4268764--4268886	46	2.6	46	77	8	124	40	18	16	24	1.90
4271309--4271361	8	7.5	8	73	26	57	18	22	43	15	1.87

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