genome.fa.s9579.2.7.7.80.10.50.1000.22.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   

This is table  22  of  29  ( 3390 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)
4332801--4332843	20	2.0	22	86	8	63	58	2	2	37	1.24
4333114--4333179	31	2.1	31	88	0	96	36	13	27	22	1.92
4343680--4343744	21	3.2	20	72	18	55	43	1	41	13	1.54
4355833--4355904	24	3.0	24	95	0	126	45	29	12	12	1.78
4379661--4379686	13	2.0	13	100	0	52	30	0	0	69	0.89
4379805--4379901	9	9.8	10	72	11	58	52	0	3	44	1.16
4382580--4382625	19	2.4	19	100	0	92	4	43	0	52	1.21
4383953--4383989	20	1.9	19	89	10	58	45	10	24	18	1.81
4384136--4384205	37	1.9	36	85	8	97	48	4	0	47	1.21
4386690--4386762	24	3.0	24	97	0	137	31	20	23	24	1.98
4386811--4386874	27	2.4	27	89	0	101	35	15	3	45	1.62
4393721--4393760	13	3.0	13	88	3	53	62	12	10	15	1.54
4393990--4394021	14	2.1	16	88	11	50	50	21	15	12	1.77
4398350--4398402	21	2.6	21	84	3	63	24	9	3	62	1.42
4401443--4401481	20	2.0	20	84	0	51	35	5	7	51	1.53
4402428--4402518	45	2.0	45	95	0	164	48	7	12	31	1.69
4404311--4404345	2	17.5	2	100	0	70	51	0	0	48	1.00
4405410--4405466	21	2.7	21	94	0	96	35	5	38	21	1.76
4405734--4405771	20	1.9	20	94	0	67	34	21	21	23	1.97
4415372--4415546	23	7.7	23	74	11	135	47	2	28	22	1.63
4415373--4415549	45	3.9	45	74	14	148	46	2	28	22	1.64
4416181--4416212	16	2.0	16	93	0	55	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4416835--4416873	19	2.1	19	85	0	51	35	10	0	53	1.35
4422333--4422371	2	20.0	2	89	5	62	46	0	0	53	1.00
4422336--4422369	17	2.0	17	94	0	59	44	0	0	55	0.99
4422334--4422372	19	2.1	19	95	0	69	43	0	0	56	0.99
4422378--4422411	3	11.3	3	100	0	68	35	0	0	64	0.94
4423514--4423571	30	1.9	30	85	0	80	18	10	12	58	1.61
4427453--4428940	106	14.0	106	92	1	2349	33	25	17	23	1.96
4429229--4429267	2	20.0	2	89	5	62	46	0	0	53	1.00
4429232--4429265	17	2.0	17	94	0	59	44	0	0	55	0.99
4429230--4429268	19	2.1	19	95	0	69	43	0	0	56	0.99
4429274--4429307	3	11.3	3	100	0	68	35	0	0	64	0.94
4430412--4430469	30	1.9	30	85	0	80	18	10	12	58	1.61
4436321--4436367	23	2.0	23	95	0	85	31	27	2	38	1.69
4440784--4441015	117	2.0	117	87	0	338	38	26	11	23	1.89
4446866--4446918	3	18.0	3	84	11	74	33	0	0	66	0.92
4447054--4447199	25	6.0	25	90	7	230	32	20	15	31	1.94
4447054--4447199	47	3.0	49	91	6	235	32	20	15	31	1.94
4447054--4447199	72	2.0	73	89	7	226	32	20	15	31	1.94
4449235--4449541	155	2.0	154	98	1	589	30	17	12	38	1.87
4451747--4451788	20	2.1	20	90	0	66	28	19	11	40	1.87
4453656--4453693	14	2.9	14	92	7	62	50	28	0	21	1.49
4454142--4454380	105	2.3	102	83	9	281	31	19	11	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4454326--4454410	36	2.4	36	84	4	109	30	21	11	36	1.89
4454692--4454807	27	4.2	28	88	10	161	31	12	13	42	1.81
4454689--4454801	53	2.1	54	88	8	169	29	11	15	44	1.81
4454766--4455059	64	4.5	65	84	8	350	30	11	12	45	1.77
4454773--4455030	130	2.0	130	87	6	371	29	12	12	45	1.78
4455089--4455302	113	1.9	113	81	9	263	32	13	11	42	1.79
4455207--4455318	60	1.9	59	81	5	136	30	15	10	43	1.80
4455307--4455386	40	2.0	40	85	4	108	31	20	12	36	1.89
4455428--4455488	31	2.0	30	81	12	70	34	14	9	40	1.79
4455481--4455524	15	2.9	15	93	0	70	31	20	4	43	1.72
4455788--4455867	35	2.2	37	82	8	94	41	20	8	30	1.82
4456178--4456381	43	4.7	43	71	11	157	25	30	20	23	1.98
4456132--4456421	130	2.2	129	89	1	445	27	30	20	22	1.98
4456669--4456718	3	17.0	3	84	12	68	34	0	0	66	0.92
4456855--4457003	25	6.0	25	94	2	223	33	19	14	32	1.92
4456855--4457003	50	3.0	50	95	1	255	33	19	14	32	1.92
4456855--4457003	75	2.0	74	93	1	253	33	19	14	32	1.92
4471018--4471051	18	1.9	18	88	5	52	23	32	29	14	1.94
4472390--4472417	14	2.0	14	100	0	56	35	0	0	64	0.94
4479256--4479293	17	2.2	18	95	4	69	73	5	15	5	1.19
4480841--4480976	73	1.9	71	84	6	184	43	13	19	22	1.87
4482743--4482778	16	2.2	17	90	5	56	52	5	2	38	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4483480--4483543	31	2.1	31	88	8	96	43	4	7	43	1.54
4491439--4491476	19	2.0	19	100	0	76	21	10	26	42	1.85
4502656--4503184	110	5.0	110	83	6	576	28	26	16	28	1.97
4502656--4503183	55	9.9	52	86	5	512	28	26	16	28	1.97
4502647--4503118	161	2.9	161	89	2	669	28	25	16	28	1.97
4504378--4504462	17	5.2	17	71	20	58	5	17	0	76	0.98
4504400--4504538	11	12.6	11	69	23	55	5	18	0	75	1.03
4504391--4504465	24	3.2	24	72	7	73	5	16	0	78	0.92
4504400--4504542	10	13.0	11	68	20	68	4	18	0	75	1.02
4518438--4518467	15	1.9	16	93	6	53	23	10	13	53	1.69
4519412--4519475	23	2.8	23	80	0	83	31	26	21	20	1.98
4520414--4520451	2	19.0	2	100	0	76	50	0	0	50	1.00
4531017--4531055	17	2.3	17	90	0	60	23	46	20	10	1.81
4531068--4531256	28	6.6	28	89	3	281	35	3	22	38	1.72
4531069--4531256	57	3.3	57	91	3	308	35	3	22	38	1.72
4531068--4531256	85	2.2	85	90	2	299	35	3	22	38	1.72
4532109--4532185	31	2.5	31	78	2	82	14	25	31	28	1.95
4532249--4532301	25	2.1	25	89	0	79	28	7	16	47	1.74
4534031--4534156	68	1.9	67	93	1	216	29	13	11	46	1.78
4536618--4537026	208	2.0	201	86	6	572	35	13	20	30	1.91
4541488--4542043	51	10.6	54	90	3	225	28	25	15	29	1.96
4541488--4541686	55	3.6	56	83	5	226	31	23	15	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4541597--4542057	51	9.0	51	94	0	769	28	26	15	29	1.96
4543195--4543252	10	5.7	10	70	25	50	1	20	0	77	0.86
4543202--4543255	20	2.6	21	82	2	65	1	22	0	75	0.89
4543190--4543280	39	2.3	41	80	12	93	5	19	0	74	1.01
4543260--4543508	124	2.0	125	98	1	484	24	19	9	46	1.79
4548461--4548536	38	2.0	37	97	2	143	34	18	17	30	1.94
4551414--4551604	95	2.0	95	96	2	357	21	29	18	30	1.97
4553015--4553111	44	2.1	47	86	7	137	40	19	11	28	1.86
4563105--4563225	37	3.3	36	91	4	199	44	19	5	30	1.74
4567039--4567157	37	3.3	37	87	5	163	44	18	5	31	1.71
4567038--4567157	35	3.3	36	88	5	172	44	19	5	31	1.72
4570009--4570060	19	2.7	19	96	0	95	17	17	34	30	1.93
4569964--4570126	84	2.0	83	85	8	224	27	15	24	31	1.96
4570026--4570192	65	2.6	63	76	10	158	25	16	25	32	1.96
4570787--4570812	2	13.0	2	100	0	52	50	0	0	50	1.00
4572842--4572939	23	4.5	22	76	14	87	24	22	25	27	2.00
4580255--4580552	55	5.5	55	76	10	219	30	22	14	32	1.94
4580229--4580552	111	3.0	109	78	12	314	31	22	14	31	1.94
4580259--4580572	51	5.9	51	75	12	215	31	22	14	31	1.94
4580574--4580645	37	2.0	36	91	2	117	20	22	19	37	1.94
4581838--4581923	45	1.9	45	81	9	104	19	26	16	37	1.93
4581927--4582113	16	11.3	16	70	17	84	8	17	0	74	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4581931--4582114	15	12.0	15	70	18	64	8	17	0	74	1.05
4581946--4582033	35	2.7	32	84	10	115	7	18	0	73	1.06
4581930--4582097	8	20.8	8	73	20	95	8	16	0	75	1.04
4581930--4582110	9	21.0	8	71	17	89	8	16	0	75	1.04
4587048--4587086	19	2.1	19	95	0	69	20	38	15	25	1.92
4586985--4587193	65	3.2	64	82	8	203	29	25	17	27	1.97
4587034--4587196	65	2.5	65	84	3	213	30	26	15	27	1.96
4590646--4590947	155	2.0	153	97	2	570	36	11	5	45	1.66
4591054--4591082	2	14.5	2	100	0	58	48	0	0	51	1.00
4598297--4598348	26	2.0	26	81	7	61	44	0	1	53	1.11

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