genome.fa.s8087.2.7.7.80.10.50.1000.20.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  20  of  37  ( 4336 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)
4510868--4510933	34	2.0	33	87	3	96	21	12	13	53	1.72
4511666--4511736	6	11.8	6	85	5	72	33	0	18	47	1.49
4512371--4512461	20	4.5	20	74	8	85	32	8	18	39	1.82
4512569--4512618	19	2.7	18	79	11	57	72	6	0	22	1.07
4512610--4512648	13	2.9	13	88	3	51	64	7	0	28	1.21
4514883--4515012	15	9.4	14	66	23	62	58	2	0	39	1.11
4514947--4514991	20	2.3	19	80	3	54	57	2	0	40	1.11
4526317--4526342	5	5.2	5	100	0	52	19	38	0	42	1.51
4533629--4533678	26	1.9	26	84	8	66	46	6	0	48	1.27
4537942--4538000	30	2.0	29	83	3	73	37	6	22	33	1.80
4538059--4538116	27	2.1	27	96	0	107	32	13	32	20	1.92
4538258--4538325	23	3.0	23	84	0	82	19	23	25	32	1.97
4540355--4540659	152	2.0	152	96	0	556	42	10	9	37	1.72
4555514--4555547	16	2.1	16	88	0	50	50	0	2	47	1.16
4555589--4555622	16	2.0	18	88	11	54	26	2	5	64	1.30
4556091--4556338	130	1.9	130	91	0	406	35	12	14	36	1.85
4556735--4556810	35	2.2	35	95	0	134	35	0	23	40	1.55
4566071--4566133	26	2.4	27	89	5	94	39	0	9	50	1.35
4566099--4566226	37	3.4	36	77	16	127	45	4	6	43	1.50
4566034--4566291	63	4.0	61	69	19	163	43	3	6	45	1.48
4566177--4566277	27	3.7	27	71	17	75	47	3	4	43	1.43
4566213--4566242	15	1.9	16	93	6	53	40	0	6	53	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4566212--4566275	25	2.6	23	76	16	65	43	1	7	46	1.42
4566228--4566416	39	5.1	37	81	9	206	43	4	6	45	1.48
4566092--4566352	127	2.0	127	97	2	497	45	4	6	43	1.50
4567610--4567662	19	2.8	19	85	2	72	16	5	0	77	0.96
4567612--4567668	19	3.0	18	80	10	60	14	5	1	78	0.99
4567612--4567668	9	6.0	9	81	8	60	14	5	1	78	0.99
4568718--4568750	17	1.9	17	93	0	57	6	12	9	72	1.26
4569367--4569411	19	2.4	19	92	3	74	11	13	8	66	1.44
4572796--4573637	84	10.2	81	79	6	771	30	24	20	25	1.99
4572768--4573533	164	4.6	165	87	2	918	30	24	20	24	1.99
4574295--4574357	26	2.4	27	89	5	94	39	0	9	50	1.35
4574323--4574450	37	3.4	36	77	16	127	45	4	6	43	1.50
4574258--4574515	63	4.0	61	69	19	163	43	3	6	45	1.48
4574401--4574501	27	3.7	27	71	17	75	47	3	4	43	1.43
4574437--4574466	15	1.9	16	93	6	53	40	0	6	53	1.27
4574436--4574499	25	2.6	23	76	16	65	43	1	7	46	1.42
4574452--4574640	39	5.1	37	81	9	206	43	4	6	45	1.48
4574316--4574576	127	2.0	127	97	2	497	45	4	6	43	1.50
4575834--4575889	19	3.0	20	75	17	59	17	5	0	76	0.96
4575838--4575896	10	5.9	10	73	13	50	13	6	1	77	1.03
4579565--4579616	15	3.2	17	72	22	58	38	19	0	42	1.51
4580532--4580756	45	5.1	44	76	13	160	27	13	4	54	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4580636--4580756	43	2.8	43	82	9	140	26	17	4	52	1.63
4580960--4581012	22	2.4	22	80	3	61	45	5	3	45	1.45
4580996--4581030	18	1.9	18	88	0	52	51	2	11	34	1.53
4581671--4581714	20	2.2	20	91	0	70	25	13	6	54	1.63
4581704--4581738	18	1.9	18	94	0	61	31	11	14	42	1.81
4585409--4585592	5	37.4	5	85	13	258	60	0	0	39	1.01
4585410--4585584	66	2.5	67	86	13	200	60	0	0	39	0.97
4589554--4589665	35	3.2	35	88	0	152	41	21	0	36	1.60
4592335--4592371	18	2.1	18	100	0	74	18	21	32	27	1.97
4593300--4593348	19	2.6	19	96	0	89	28	20	4	46	1.68
4595123--4595198	35	2.2	35	92	0	125	40	22	0	36	1.54
4595596--4595848	135	1.9	130	89	4	389	35	14	13	36	1.85
4596311--4596344	16	2.0	18	88	11	54	64	5	2	26	1.30
4596344--4596401	30	1.9	30	82	6	73	44	6	1	46	1.40
4616627--4616695	20	3.5	19	80	5	66	33	28	14	23	1.94
4616646--4616710	20	3.3	18	75	16	58	38	27	12	21	1.89
4617264--4617315	20	2.7	20	81	3	61	15	13	19	51	1.75
4619029--4619149	62	2.0	61	81	6	145	23	12	33	30	1.92
4619444--4619604	21	7.7	21	73	9	114	21	36	19	22	1.95
4619440--4619604	42	3.9	41	87	3	222	21	36	19	23	1.95
4620949--4621099	78	1.9	78	93	0	257	31	2	16	49	1.59
4620960--4621094	37	3.5	37	71	11	110	30	2	15	51	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4621223--4621280	29	2.0	29	89	0	89	37	24	12	25	1.90
4621520--4621560	12	3.4	12	86	0	55	17	2	24	56	1.53
4621527--4621561	6	5.8	6	86	0	52	17	2	20	60	1.49
4624605--4624638	14	2.4	14	85	0	50	70	0	2	26	1.01
4624780--4624868	20	4.5	20	72	13	69	35	12	21	30	1.90
4630186--4630540	175	2.0	175	99	0	701	32	12	16	38	1.86
4634540--4634580	16	2.6	16	88	3	57	36	7	21	34	1.82
4638399--4638423	12	2.1	12	100	0	50	32	8	24	36	1.84
4642782--4642820	14	2.8	14	84	0	51	30	23	25	20	1.98
4642864--4642938	19	3.8	19	77	11	71	30	26	25	17	1.97
4642864--4642938	29	2.5	31	87	8	111	30	26	25	17	1.97
4650120--4650177	5	10.8	5	75	14	53	8	22	50	18	1.74
4650106--4650195	34	2.7	34	83	11	105	14	23	44	17	1.86
4650130--4650195	17	3.9	17	97	0	123	12	22	46	18	1.81
4650113--4650177	22	3.0	22	72	17	71	10	23	47	18	1.79
4650193--4650231	19	2.1	19	95	0	69	25	28	25	20	1.99
4650202--4650241	10	4.1	10	83	6	55	27	27	25	20	1.99
4650199--4650240	19	2.2	19	91	0	66	26	28	28	16	1.97
4660504--4660598	45	2.1	45	92	0	154	38	13	12	34	1.83
4667473--4667515	20	2.2	20	87	4	61	32	18	6	41	1.77
4681567--4681620	22	2.5	22	100	0	108	31	11	11	46	1.74
4688374--4688403	13	2.3	13	94	0	51	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4691976--4692035	23	2.6	23	83	0	84	43	3	16	36	1.65
4692072--4692122	23	2.2	23	89	0	75	37	5	21	35	1.78
4691954--4692197	87	2.8	87	91	0	380	42	7	15	34	1.74
4692210--4692878	198	3.4	198	85	4	848	32	14	13	39	1.85
4692979--4693072	30	3.2	30	79	11	81	50	1	1	47	1.15
4692990--4693076	14	6.2	14	69	9	52	47	1	1	50	1.16
4693004--4693072	28	2.5	28	74	6	70	49	1	1	47	1.19
4693098--4693151	22	2.3	24	84	6	67	44	1	1	51	1.22
4693107--4693159	24	2.3	23	87	6	72	41	0	3	54	1.18
4693742--4693832	30	3.1	30	80	10	82	50	1	1	47	1.15
4693750--4693851	14	7.2	14	70	11	57	48	1	0	49	1.19
4693764--4693832	28	2.5	28	74	6	70	49	1	1	47	1.19
4693815--4693859	14	3.1	15	84	6	58	55	2	0	42	1.12
4693868--4693919	24	2.2	24	80	16	65	42	0	5	51	1.25
4694173--4694222	23	2.2	23	85	0	64	36	14	12	38	1.83
4694157--4694380	87	2.6	87	89	0	340	35	12	10	41	1.77
4694259--4694508	110	2.3	110	91	2	412	34	14	10	41	1.79
4694346--4694410	23	2.8	22	90	9	103	36	20	9	33	1.84
4694447--4694508	23	2.7	23	92	0	97	33	20	6	38	1.79
4702616--4702995	30	12.8	30	70	14	168	37	6	2	53	1.41
4702626--4702972	60	5.8	60	72	14	243	37	6	2	53	1.41
4702620--4702952	57	5.6	60	71	12	193	37	7	2	52	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4702617--4702972	180	2.0	178	81	9	411	37	6	2	53	1.41
4703071--4703222	30	5.1	29	77	10	114	57	2	3	35	1.31
4703090--4703222	61	2.2	60	83	5	160	58	2	3	35	1.28
4706615--4706900	58	4.8	59	81	6	271	33	16	13	36	1.88
4706633--4706900	118	2.3	117	81	6	299	34	16	13	35	1.88
4712622--4712658	20	1.9	19	89	10	58	18	16	13	51	1.76
4716010--4716151	35	4.0	35	90	5	214	38	19	23	19	1.94
4716005--4716149	71	2.0	71	94	0	254	40	19	22	17	1.92
4716369--4716407	19	2.1	19	100	0	78	33	15	25	25	1.95
4718925--4718950	6	4.3	6	100	0	52	46	0	19	34	1.50

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