genome.fa.s8053.2.7.7.80.10.50.1000.22.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  22  of  32  ( 3749 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)
4374793--4374856	22	2.9	23	84	6	71	48	0	0	51	1.00
4374868--4374965	28	3.4	28	77	14	94	43	0	3	53	1.16
4374991--4375034	22	2.0	22	86	4	61	54	2	2	40	1.25
4375115--4375153	13	2.9	13	81	7	51	61	0	0	38	0.96
4375378--4375448	15	4.8	15	73	3	72	32	18	7	42	1.77
4375378--4375453	30	2.6	29	87	8	109	32	18	7	40	1.79
4377894--4377927	16	2.1	16	88	0	50	52	0	0	47	1.00
4379073--4379103	16	1.9	16	100	0	62	32	12	0	54	1.38
4379181--4379230	20	2.5	20	80	0	64	28	16	8	48	1.74
4380060--4380099	17	2.4	17	100	0	80	32	22	12	32	1.91
4380214--4380319	29	3.9	27	70	17	76	16	25	12	45	1.83
4380235--4380347	55	2.0	57	84	6	151	15	23	11	50	1.76
4381548--4381632	26	3.2	26	75	16	84	18	22	10	48	1.79
4385490--4385519	5	5.8	5	96	4	51	83	0	0	16	0.65
4400417--4400838	55	7.8	55	81	5	398	32	14	23	29	1.94
4416735--4416853	51	2.2	53	77	5	134	25	10	20	44	1.82
4416943--4416975	2	16.5	2	100	0	66	51	0	0	48	1.00
4432744--4432786	19	2.3	19	79	0	50	48	2	4	44	1.36
4432885--4432941	30	1.9	30	85	7	80	49	1	1	47	1.22
4433178--4433209	17	1.9	16	93	6	55	43	0	0	56	0.99
4437616--4437654	20	2.0	20	84	0	51	69	12	0	17	1.19
4439071--4439146	3	25.7	3	94	2	136	64	0	1	34	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4439280--4439918	114	5.6	112	90	3	870	28	20	13	37	1.91
4440550--4441758	82	14.7	83	92	3	1973	35	23	13	27	1.92
4440550--4441758	165	7.3	165	96	0	2217	35	23	13	27	1.92
4442541--4442580	16	2.5	16	88	8	55	52	10	7	30	1.62
4442906--4442945	7	5.4	8	77	17	50	0	25	0	75	0.81
4455595--4455628	15	2.3	15	90	5	52	38	0	2	58	1.13
4455627--4455688	3	20.7	3	96	0	115	64	0	1	33	1.03
4456423--4456456	10	3.3	10	87	4	50	79	0	0	20	0.73
4457166--4457197	16	2.0	16	100	0	64	12	18	12	56	1.67
4457998--4458062	11	5.9	11	72	18	55	46	3	0	50	1.17
4457991--4458043	19	2.7	19	97	2	97	47	0	0	52	1.00
4458404--4458485	33	2.4	32	82	8	92	47	3	1	47	1.27
4467087--4467126	2	20.0	2	90	10	64	50	2	0	47	1.14
4471325--4471390	29	2.3	28	97	0	105	22	30	28	18	1.97
4472721--4472907	65	2.9	65	89	4	288	54	17	6	21	1.65
4475132--4475173	19	2.2	19	87	8	59	40	0	0	59	0.97
4475170--4475222	27	2.0	27	81	7	63	41	5	11	41	1.64
4475787--4475861	38	2.0	37	82	10	91	48	4	0	48	1.20
4477897--4477940	22	2.0	22	86	0	61	43	9	2	45	1.48
4480887--4480978	31	3.0	31	90	3	132	21	19	21	36	1.95
4481459--4481501	21	2.0	21	82	8	52	32	4	13	48	1.63
4482916--4482947	2	16.0	2	100	0	64	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)
4489765--4489822	17	3.4	17	80	7	64	39	6	17	36	1.76
4491147--4491437	80	3.6	79	88	4	413	29	26	22	20	1.99
4493544--4494045	249	2.0	249	98	0	977	33	15	9	40	1.80
4494518--4494555	17	2.2	17	90	0	58	28	28	26	15	1.96
4500975--4501032	17	3.4	16	83	7	62	36	6	18	37	1.78
4501840--4501884	18	2.5	18	85	0	63	22	51	15	11	1.75
4504354--4504468	24	4.8	24	85	6	144	24	14	19	41	1.89
4504546--4504620	35	2.1	35	92	0	123	9	26	28	36	1.87
4509003--4509105	24	4.3	24	82	0	125	23	13	18	44	1.85
4509175--4509249	35	2.1	35	92	0	123	13	25	28	33	1.93
4513199--4513294	48	2.0	48	97	0	183	33	16	17	32	1.93
4516239--4516287	21	2.3	23	79	13	59	51	10	2	36	1.48
4516373--4516462	42	2.1	42	97	0	171	26	41	11	21	1.86
4517279--4517316	16	2.2	18	86	9	53	28	0	2	68	1.03
4518176--4518252	31	2.5	31	80	2	91	27	31	27	14	1.95
4518129--4518252	63	2.0	63	82	6	153	25	29	28	16	1.97
4519369--4519406	7	5.4	7	100	0	76	26	28	28	15	1.96
4519403--4519443	5	7.8	5	84	10	55	4	21	53	19	1.63
4519396--4519460	22	3.0	22	95	0	112	12	23	46	18	1.82
4519457--4519554	19	5.2	18	81	15	117	27	30	28	13	1.94
4519457--4519574	38	3.1	38	83	11	127	28	28	27	14	1.95
4519457--4519574	29	4.1	28	81	12	116	28	28	27	14	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4519457--4519574	9	12.3	9	80	10	110	28	28	27	14	1.95
4525786--4525861	30	2.5	31	80	6	91	27	30	27	14	1.95
4526727--4526757	7	4.4	7	100	0	62	25	29	29	16	1.96
4526747--4526811	22	3.0	22	97	0	121	10	23	47	18	1.79
4526754--4526794	5	7.8	5	84	10	55	4	21	53	19	1.63
4526808--4526905	19	5.2	18	81	15	117	27	30	28	13	1.94
4526808--4526925	38	3.1	38	83	11	127	28	28	27	14	1.95
4526808--4526925	29	4.1	28	81	12	116	28	28	27	14	1.95
4526808--4526925	9	12.3	9	80	10	110	28	28	27	14	1.95
4528302--4528348	2	23.5	2	100	0	94	51	0	0	48	1.00
4528628--4528683	27	2.1	27	89	0	85	33	25	12	28	1.92
4528934--4529036	30	3.5	30	90	2	147	16	30	20	33	1.95
4532249--4532280	2	16.0	2	100	0	64	50	0	0	50	1.00
4534738--4534771	17	2.0	17	100	0	68	47	17	0	35	1.48
4536459--4536483	6	4.2	6	100	0	50	0	0	52	48	1.00
4546762--4546823	25	2.6	25	77	10	58	62	0	1	35	1.05
4546750--4546834	34	2.5	34	88	0	134	58	0	1	40	1.05
4546780--4546844	12	5.4	12	74	23	57	56	0	1	41	1.08
4546751--4546842	22	4.0	23	70	17	66	57	0	1	41	1.06
4552859--4552910	26	2.0	26	92	0	86	26	25	17	30	1.97
4558802--4558860	29	2.0	29	100	0	118	22	6	30	40	1.79
4560312--4561037	370	2.0	370	98	0	1407	29	18	22	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4564757--4564854	2	48.0	2	95	4	178	48	2	0	48	1.12
4570451--4570506	13	4.2	13	76	10	51	25	1	0	73	0.93
4570447--4570508	26	2.5	24	77	12	70	27	1	0	70	0.96
4570451--4570507	27	2.1	27	83	6	71	24	1	0	73	0.92
4579463--4579502	15	2.7	15	84	0	62	32	22	35	10	1.87
4579720--4579804	35	2.5	33	78	14	91	25	8	10	55	1.62
4582039--4582199	65	2.5	63	83	5	209	27	15	26	30	1.96
4582147--4582197	19	2.7	19	85	8	70	25	15	35	23	1.94
4582544--4582580	18	2.0	19	94	5	67	59	27	0	13	1.35
4583194--4583356	65	2.5	64	82	3	211	27	15	26	30	1.96
4583304--4583354	19	2.7	19	85	8	70	25	15	35	23	1.94
4585730--4585871	51	2.8	51	89	2	214	21	28	33	17	1.96
4588032--4588074	17	2.7	15	77	22	52	41	2	2	53	1.26
4599709--4599781	30	2.5	30	82	6	78	38	9	9	42	1.70
4600223--4600356	60	2.2	60	87	6	184	35	7	24	32	1.83
4603444--4603497	25	2.2	25	100	0	108	11	22	12	53	1.70
4603576--4603611	19	1.9	19	94	5	65	13	27	5	52	1.63
4604136--4604205	9	8.1	8	73	17	52	70	4	2	22	1.19
4604136--4604232	5	19.2	5	77	12	58	71	4	4	20	1.20
4604129--4604264	47	3.0	45	84	7	143	70	4	6	18	1.26
4604190--4604264	25	3.1	24	84	11	91	70	4	8	17	1.27
4604343--4604379	11	3.3	11	92	3	56	75	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4605166--4606158	494	2.0	494	99	0	1961	29	18	23	28	1.98
4606359--4607210	106	8.0	106	94	0	1420	21	19	25	33	1.97
4608879--4608934	27	2.2	25	78	12	60	3	17	5	73	1.17
4608896--4608967	16	4.7	15	75	17	67	1	15	4	79	0.96
4608898--4608955	22	2.5	23	83	13	66	1	15	5	77	1.02
4611938--4612002	20	3.3	20	69	16	55	72	3	9	15	1.23
4611905--4612179	34	7.5	37	72	21	151	70	3	6	19	1.25
4611956--4612008	5	10.8	5	80	8	56	75	1	5	16	1.08
4611938--4612033	40	2.4	40	88	8	135	70	4	8	16	1.27
4612031--4612089	31	1.9	31	89	6	93	67	0	5	27	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   30   31   32