genome.fa.s1465.2.7.7.80.10.50.1000.44.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   

This is table  44  of  55  ( 6520 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)
8873028--8873101	10	7.5	10	72	14	64	79	0	13	6	0.91
8873036--8873078	11	4.0	11	82	14	54	79	0	16	4	0.90
8873027--8873062	18	2.0	18	94	0	63	80	0	13	5	0.88
8873029--8873101	21	3.5	21	75	15	64	80	0	12	6	0.89
8873029--8873100	31	2.3	31	88	4	101	80	0	12	6	0.89
8873032--8873093	18	3.9	15	78	22	56	80	0	12	6	0.89
8873423--8873457	18	1.9	18	100	0	70	31	5	5	57	1.46
8874618--8875176	123	4.8	113	87	5	615	39	14	19	26	1.90
8875480--8875516	3	12.3	3	88	0	56	35	2	2	59	1.26
8878321--8878350	15	1.9	16	93	6	53	10	0	50	40	1.36
8888478--8888517	16	2.5	16	91	0	62	10	45	2	42	1.51
8889658--8889712	2	27.5	2	96	0	101	50	0	1	47	1.11
8890671--8890705	2	17.5	2	100	0	70	48	0	0	51	1.00
8892834--8892889	2	28.0	2	100	0	112	50	0	0	50	1.00
8893777--8893819	21	2.0	21	100	0	86	13	30	9	46	1.75
8894221--8894248	4	7.0	4	100	0	56	75	0	0	25	0.81
8894299--8894328	2	15.0	2	92	0	51	50	3	0	46	1.18
8896282--8896938	105	6.2	105	92	0	1028	22	17	26	33	1.96
8900093--8900120	4	7.0	4	100	0	56	75	0	0	25	0.81
8900171--8900210	2	20.0	2	94	0	71	50	2	0	47	1.14
8900461--8900496	16	2.2	17	90	5	56	72	0	2	25	0.98
8902258--8902290	10	3.3	10	95	0	57	42	9	39	9	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8904389--8904420	2	16.0	2	100	0	64	50	0	0	50	1.00
8907167--8907230	2	35.0	2	76	17	59	46	1	0	51	1.10
8907165--8907241	10	7.5	11	77	12	58	46	1	1	50	1.17
8915382--8915470	23	3.9	23	89	0	124	31	23	29	15	1.95
8915457--8915500	23	2.0	22	86	4	61	36	22	20	20	1.95
8915400--8915492	46	2.0	46	83	8	118	33	23	26	16	1.95
8924087--8924157	35	2.0	35	97	0	133	29	15	18	36	1.92
8924586--8924610	13	1.9	13	100	0	50	72	8	0	20	1.10
8927898--8927968	29	2.5	30	82	13	96	63	2	1	32	1.18
8927935--8927968	17	1.9	18	88	5	52	64	5	0	29	1.17
8931799--8931852	26	2.1	25	83	10	65	55	1	0	42	1.10
8933470--8933512	3	14.0	3	90	4	68	62	0	2	34	1.08
8933635--8933803	45	3.8	45	97	0	320	33	19	23	23	1.97
8934870--8934991	54	2.3	54	78	2	129	25	22	13	39	1.90
8935883--8936054	75	2.4	72	84	6	206	27	22	16	33	1.95
8935883--8936125	69	3.4	73	81	8	209	28	21	15	33	1.94
8941930--8942026	14	6.5	14	68	13	50	56	9	14	19	1.65
8941977--8942031	28	2.0	27	82	3	65	50	9	16	23	1.73
8942058--8942101	7	6.3	7	92	7	72	59	11	15	13	1.62
8942182--8942265	43	1.9	44	82	2	107	32	23	13	30	1.93
8942719--8942787	36	1.9	36	90	0	111	30	11	17	40	1.85
8943674--8943704	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8944502--8944546	22	2.0	22	82	8	54	55	2	0	42	1.12
8950040--8950091	25	2.1	25	92	0	86	32	15	19	32	1.93
8953817--8953895	32	2.5	32	100	0	158	36	15	13	34	1.87
8956530--8956604	38	2.0	37	84	5	98	49	4	0	46	1.20
8957905--8957952	24	2.0	24	100	0	96	41	8	20	29	1.81
8958460--8958486	2	13.5	2	100	0	54	48	0	0	51	1.00
8958922--8958956	17	2.1	17	94	0	61	40	5	8	45	1.58
8963101--8963293	95	2.0	96	96	1	361	49	20	5	24	1.70
8964967--8965079	57	2.0	57	100	0	226	9	8	31	49	1.66
8966527--8966570	19	2.3	19	100	0	88	34	4	25	36	1.76
8968541--8968664	4	31.0	4	100	0	248	50	25	0	25	1.50
8978126--8978175	14	3.6	14	78	10	57	74	2	10	14	1.16
8978126--8978183	14	4.2	13	80	8	53	74	1	8	15	1.14
8978344--8978420	41	1.9	39	84	5	100	48	6	27	18	1.72
8978491--8978538	23	2.1	22	84	3	60	72	0	4	22	1.01
8978798--8978833	18	2.1	18	89	5	56	66	2	5	25	1.27
8979759--8980469	106	6.9	96	81	11	635	23	18	22	34	1.96
8988506--8988585	40	2.0	40	83	9	103	57	6	5	31	1.45
8988754--8988799	24	2.0	23	82	4	56	73	0	4	21	1.00
8988799--8988823	2	12.5	2	100	0	50	52	0	0	48	1.00
8988876--8988922	2	23.5	2	100	0	94	51	0	0	48	1.00
8989096--8989131	18	2.1	18	89	5	56	66	2	5	25	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8989509--8989586	35	2.2	35	97	2	147	26	19	10	43	1.83
8999125--8999168	3	16.0	3	82	17	51	29	0	2	68	1.02
8999119--8999167	16	3.1	16	82	2	64	26	0	2	71	0.97
8999115--8999168	19	2.8	18	86	8	63	25	0	3	70	1.04
9003329--9003366	14	2.7	14	87	0	58	28	13	0	57	1.36
9007822--9007861	19	2.1	19	100	0	80	42	17	0	40	1.49
9010130--9010190	20	2.9	21	85	7	70	16	22	34	26	1.95
9018753--9018927	75	2.3	75	87	1	244	29	17	22	30	1.97
9020668--9021200	113	4.7	113	87	1	750	37	14	20	26	1.92
9020656--9021197	226	2.4	226	95	0	962	38	14	20	26	1.91
9021141--9021236	39	2.4	40	94	1	167	47	8	23	19	1.76
9021027--9021348	152	2.1	152	90	3	497	40	12	21	26	1.89
9021682--9021734	24	2.2	24	83	6	63	22	1	3	71	1.12
9023295--9023384	2	46.0	2	81	8	105	48	1	1	48	1.15
9033424--9033465	20	2.1	19	83	12	57	47	0	0	52	1.00
9037679--9037718	16	2.5	17	80	19	50	27	15	7	50	1.70
9041368--9041406	17	2.4	17	86	4	62	46	10	0	43	1.37
9041359--9041506	42	3.4	42	76	17	133	45	8	1	44	1.41
9041447--9041511	24	2.9	22	84	11	87	50	7	0	41	1.31
9042102--9042148	11	4.3	11	76	7	51	38	0	2	59	1.09
9042084--9042144	21	2.9	21	76	16	63	39	0	3	57	1.15
9047576--9048000	141	3.0	141	100	0	850	34	23	20	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9048454--9048507	23	2.3	23	84	6	74	51	14	5	27	1.64
9052461--9052494	9	3.9	9	84	7	52	35	0	2	61	1.11
9052460--9052498	17	2.4	17	95	4	71	33	0	5	61	1.18
9052444--9052516	16	4.6	16	79	5	58	28	0	2	68	1.03
9057332--9057411	3	27.3	3	89	5	128	36	0	1	62	1.03
9058636--9058677	22	1.9	22	85	0	57	30	2	0	66	1.04
9058711--9058778	23	3.0	23	80	8	84	27	5	2	63	1.32
9058712--9058777	11	5.8	11	72	19	55	27	4	3	65	1.27
9059032--9059077	23	2.0	22	83	4	56	47	10	2	39	1.51
9061562--9061655	49	1.9	49	97	0	179	40	7	23	28	1.81
9062024--9062103	27	3.1	26	83	11	103	20	11	6	62	1.49
9062069--9062103	12	2.8	13	82	8	54	22	8	0	68	1.16
9061997--9062116	53	2.2	52	82	10	136	19	12	9	59	1.60
9067661--9067720	22	2.7	22	89	5	86	36	13	13	36	1.84
9068404--9068494	45	2.0	46	89	8	141	23	25	23	28	1.99
9068426--9068795	76	4.9	76	91	1	584	24	20	21	32	1.97
9068426--9068795	151	2.5	152	91	1	593	24	20	21	32	1.97
9068729--9068842	45	2.5	45	85	5	149	26	21	21	30	1.98
9068653--9068886	121	1.9	121	95	0	423	26	21	20	32	1.97
9068661--9068948	121	2.4	122	86	6	392	28	21	20	29	1.98
9069084--9069130	3	16.0	3	86	4	69	36	0	2	61	1.08
9070330--9070396	23	3.0	22	76	6	71	28	5	2	62	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9070443--9070778	151	2.2	148	80	11	351	38	5	7	47	1.56
9076397--9076489	21	4.6	20	79	4	105	39	18	23	18	1.92
9076394--9076489	41	2.3	41	96	0	174	40	17	22	18	1.91
9076416--9076550	41	3.3	41	81	6	123	38	20	20	20	1.94
9076478--9076571	20	4.7	20	80	2	89	34	24	18	23	1.96
9077095--9077161	19	3.5	19	83	2	80	49	23	16	10	1.77
9077157--9077281	33	3.6	35	86	5	141	14	24	20	40	1.90
9077157--9077226	19	3.7	19	92	0	113	12	21	22	42	1.87
9077156--9077237	19	4.3	18	75	17	53	13	24	21	40	1.89
9077202--9077296	33	2.8	33	93	1	154	15	26	20	37	1.92

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   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55