genome.fa.s7923.2.7.7.80.10.50.1000.22.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   39   40   

This is table  22  of  40  ( 4704 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)
4373512--4373685	31	5.6	31	97	0	321	38	23	19	18	1.93
4377988--4378127	31	4.5	31	95	0	244	39	20	19	20	1.93
4379927--4380011	35	2.5	33	78	14	91	27	8	10	54	1.63
4388416--4388643	114	2.0	114	87	3	334	34	14	26	24	1.93
4392677--4392728	27	1.9	27	88	0	77	53	25	7	13	1.65
4394709--4394862	65	2.4	65	86	0	200	29	20	18	31	1.96
4397104--4397168	21	3.0	21	88	2	85	16	24	41	16	1.89
4397201--4397240	20	2.1	19	90	4	62	17	27	32	22	1.96
4400450--4400489	20	2.0	21	85	5	55	25	17	10	47	1.78
4402564--4402717	65	2.4	64	83	3	175	31	18	21	29	1.97
4404912--4405053	62	2.3	63	90	2	214	34	2	23	38	1.70
4408729--4408819	24	3.8	24	82	2	112	24	17	20	37	1.94
4408898--4408972	35	2.1	35	95	0	132	9	29	26	34	1.88
4410402--4410543	64	2.3	63	90	2	214	35	3	23	37	1.72
4414219--4414309	24	3.8	24	85	2	130	26	15	20	37	1.93
4414388--4414462	35	2.1	35	95	0	132	10	28	28	33	1.90
4421845--4421904	30	2.0	30	93	0	102	28	25	13	33	1.93
4424492--4424519	14	2.0	14	100	0	56	42	0	28	28	1.56
4432052--4432418	184	2.0	183	95	0	662	23	31	17	27	1.97
4434309--4434375	29	2.3	29	94	2	118	40	22	0	37	1.54
4440732--4440769	15	2.5	15	91	0	58	34	26	2	36	1.71
4450135--4450181	25	1.9	25	86	4	69	40	6	2	51	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4451402--4451492	37	2.5	37	85	7	125	38	29	7	24	1.83
4453078--4453139	20	3.0	20	73	17	56	46	0	0	53	1.00
4453088--4453125	20	2.0	18	90	10	58	42	0	0	57	0.98
4453334--4453390	20	2.8	20	69	10	53	57	0	0	42	0.98
4459560--4459585	12	2.2	12	100	0	52	19	26	15	38	1.91
4459823--4459909	2	43.5	2	97	0	165	50	1	0	48	1.08
4460980--4461018	3	12.7	3	84	15	53	66	2	0	30	1.05
4463049--4463232	76	2.4	76	92	0	298	39	14	14	32	1.85
4463230--4463402	75	2.3	74	90	2	260	39	12	15	32	1.85
4463131--4463320	96	1.9	99	89	3	296	37	15	15	31	1.88
4463131--4463517	96	4.0	96	70	17	289	37	14	14	32	1.88
4463378--4463448	23	3.1	23	87	2	99	35	16	14	33	1.89
4464954--4465007	20	2.6	21	88	11	76	35	18	24	22	1.96
4465749--4465790	21	2.0	21	86	4	59	23	21	30	23	1.99
4466745--4466894	73	2.0	74	97	1	284	39	14	13	33	1.84
4467373--4467413	12	3.6	12	74	12	50	17	17	19	46	1.85
4468454--4468498	21	2.1	21	87	0	63	31	28	24	15	1.96
4469436--4469462	2	13.5	2	100	0	54	48	0	0	51	1.00
4469707--4469748	22	2.0	22	85	4	59	40	7	21	30	1.80
4470105--4470408	148	2.1	149	94	3	535	25	18	22	33	1.96
4470384--4470428	23	2.0	23	90	0	72	22	26	26	24	2.00
4474477--4474522	22	2.2	22	92	7	78	19	19	13	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4474512--4474560	18	2.6	19	80	6	64	26	16	14	42	1.86
4479368--4479411	2	22.0	2	95	0	79	50	2	0	47	1.13
4492468--4492508	19	2.2	19	95	0	73	17	9	26	46	1.79
4492583--4492631	25	2.0	25	100	0	98	24	24	28	22	1.99
4499364--4499494	65	2.0	65	89	2	201	38	18	2	40	1.63
4499937--4499975	15	2.6	15	87	0	51	30	2	20	46	1.64
4501593--4501714	61	2.0	61	95	0	217	37	13	13	35	1.84
4504434--4504594	64	2.5	65	86	7	204	33	18	21	26	1.96
4506068--4506113	23	2.0	23	91	0	74	21	23	26	28	1.99
4507750--4507782	2	16.5	2	100	0	66	51	0	0	48	1.00
4511475--4511509	17	2.1	17	100	0	70	25	11	28	34	1.91
4518349--4518380	6	5.7	6	89	10	50	0	50	0	50	1.00
4519335--4519376	20	2.1	20	86	0	57	30	33	0	35	1.58
4525212--4525267	29	1.9	29	82	7	69	19	1	33	44	1.61
4525852--4526047	84	2.3	85	87	1	270	46	14	15	23	1.83
4526649--4526693	21	2.1	21	91	0	72	44	2	13	40	1.56
4527320--4527412	15	6.4	14	71	15	55	26	3	4	65	1.26
4535408--4535434	12	2.2	12	100	0	54	55	0	7	37	1.28
4536453--4536490	18	2.1	18	85	9	51	42	5	0	52	1.24
4537035--4537157	63	2.0	63	83	6	160	39	8	6	44	1.62
4538086--4538205	35	3.4	35	88	0	150	34	20	15	30	1.94
4540333--4540494	64	2.5	64	94	3	281	24	16	25	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4540457--4540494	20	1.9	20	94	0	67	18	15	34	31	1.92
4541102--4541138	14	2.4	16	82	8	51	54	21	0	24	1.45
4546983--4547035	22	2.4	22	96	0	97	26	16	0	56	1.41
4547002--4547222	118	1.9	117	79	6	250	28	15	8	47	1.73
4548462--4548641	65	2.8	65	88	2	247	28	16	24	30	1.97
4550098--4550179	40	2.0	40	97	0	155	34	26	15	23	1.95
4556025--4556083	31	1.9	31	89	0	91	28	8	15	47	1.74
4568260--4568298	20	2.0	20	84	0	51	23	7	23	46	1.78
4568470--4568507	20	1.9	20	88	0	58	15	26	36	21	1.93
4568447--4568507	21	3.0	20	78	7	61	14	24	37	22	1.92
4572293--4572332	21	1.9	21	90	10	64	37	10	0	52	1.35
4575491--4575597	31	3.4	32	81	11	123	29	16	16	36	1.92
4577809--4577837	15	2.0	15	93	6	51	37	0	13	48	1.43
4579713--4579819	31	3.4	32	80	11	123	29	16	17	35	1.93
4580626--4580658	16	2.0	17	88	5	50	33	6	18	42	1.75
4580842--4580947	31	3.4	31	78	13	101	32	17	17	32	1.94
4583914--4583950	18	2.1	18	100	0	74	37	21	0	40	1.54
4584743--4584787	22	2.0	24	86	8	67	28	2	4	64	1.25
4585026--4585093	28	2.4	28	97	0	127	39	10	2	47	1.53
4587988--4588013	2	13.0	2	100	0	52	50	0	0	50	1.00
4588308--4588338	15	2.1	15	93	0	53	54	0	0	45	0.99
4589382--4589455	30	2.5	29	78	6	78	16	5	18	59	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4589396--4589452	29	1.9	30	82	10	73	19	5	15	59	1.55
4593676--4593728	21	2.5	21	84	0	70	22	24	16	35	1.95
4593721--4593790	20	3.5	20	98	0	131	40	21	20	18	1.92
4593989--4594050	22	2.8	22	85	0	88	27	38	12	20	1.90
4594374--4594446	33	2.2	33	85	7	94	13	20	26	39	1.90
4594419--4594486	20	3.4	20	83	0	73	16	14	26	42	1.86
4594457--4594496	20	2.0	20	90	0	62	15	12	25	47	1.80
4596325--4596521	20	10.5	20	79	14	206	41	21	19	17	1.91
4596325--4596559	40	6.4	39	75	18	202	41	21	20	17	1.90
4596566--4596611	20	2.3	20	84	0	65	19	21	23	34	1.96
4597098--4597189	21	4.4	20	68	11	60	20	36	17	25	1.94
4598638--4598691	14	3.5	14	73	22	54	44	20	24	11	1.83
4598618--4598713	33	2.8	33	92	3	147	42	20	23	12	1.86
4598728--4598822	33	2.8	33	90	1	154	12	22	18	46	1.83
4598728--4598813	16	5.1	17	68	26	67	11	22	18	47	1.80
4598815--4598872	20	2.8	20	89	2	89	22	18	20	37	1.94
4598795--4598882	20	4.5	19	76	12	88	18	20	22	38	1.93
4601089--4601115	14	1.9	14	100	0	54	7	11	29	51	1.64
4601326--4601372	24	2.0	24	91	0	76	34	17	19	29	1.94
4602018--4602058	22	1.9	21	85	5	55	26	12	39	21	1.89
4602206--4602272	20	3.3	20	95	0	116	22	19	26	31	1.98
4602259--4602371	20	5.7	20	92	0	181	21	19	19	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4603467--4603515	21	2.3	21	89	3	71	28	6	48	16	1.69
4606391--4606600	113	1.9	113	83	2	278	40	13	16	30	1.86
4608688--4608738	21	2.4	22	93	6	95	19	19	7	52	1.70
4614618--4614725	19	5.4	19	76	16	85	36	4	27	31	1.77
4615100--4615230	45	3.0	46	82	14	181	21	16	24	37	1.94
4615146--4615208	20	3.1	20	73	11	65	20	17	23	38	1.93
4615345--4615388	21	2.1	21	91	0	70	27	25	22	25	2.00
4615349--4615395	21	2.2	21	84	0	58	29	25	21	23	1.99
4614973--4615507	269	2.0	266	84	6	702	26	19	21	32	1.97
4615410--4615542	46	3.0	46	87	10	206	22	17	23	36	1.94

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   39   40