genome.fa.s8356.2.7.7.80.10.50.1000.18.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   56   

This is table  18  of  56  ( 6656 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)
3561853--3562031	42	4.3	42	93	0	304	19	18	25	36	1.95
3561828--3562034	84	2.5	84	89	3	312	20	19	23	36	1.95
3562772--3562864	21	4.5	21	79	12	102	31	25	20	22	1.98
3562761--3562954	62	3.1	63	81	8	195	26	22	20	29	1.99
3562879--3562967	21	4.3	21	78	13	103	23	23	21	31	1.98
3562966--3563106	21	6.8	21	80	11	164	21	21	25	30	1.99
3563768--3563811	3	14.3	3	86	9	54	68	0	0	31	0.90
3564290--3564358	3	22.7	3	94	2	120	66	1	0	31	1.00
3564871--3564907	16	2.3	16	95	0	65	29	21	10	37	1.88
3566024--3566053	15	2.0	15	93	0	51	30	23	6	40	1.80
3566126--3566170	17	2.6	18	92	3	74	31	11	26	31	1.91
3566742--3566835	38	2.5	38	85	3	136	38	39	10	11	1.77
3566560--3567156	270	2.2	267	84	7	746	42	18	10	28	1.84
3568814--3568858	22	2.0	22	83	8	56	37	4	11	46	1.60
3569009--3569162	86	1.8	81	81	9	184	30	19	25	24	1.98
3574837--3574874	8	5.0	8	87	9	53	39	0	7	52	1.31
3575185--3575229	18	2.5	19	78	14	58	26	4	0	68	1.08
3575180--3575238	18	3.2	18	68	23	50	23	6	0	69	1.12
3574698--3575207	286	1.8	279	94	4	911	28	8	5	57	1.49
3575363--3575400	13	2.9	13	85	11	51	18	5	0	76	0.97
3585968--3585997	1	30.0	1	100	0	60	100	0	0	0	0.00
3586579--3586605	1	27.0	1	100	0	54	100	0	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3586789--3587774	105	9.4	105	94	1	1667	32	24	18	23	1.97
3589993--3590042	18	2.8	18	82	14	68	26	4	0	70	1.05
3590168--3590205	13	2.9	13	85	11	51	18	5	0	76	0.97
3590258--3590317	26	2.2	26	82	5	66	23	10	1	65	1.32
3594229--3594255	6	4.5	6	100	0	54	0	14	0	85	0.61
3594333--3594405	33	2.2	34	78	11	80	49	4	4	42	1.41
3594356--3594403	15	2.9	16	81	12	62	52	4	2	41	1.32
3594371--3594423	24	2.2	25	86	3	72	47	3	0	49	1.19
3594567--3594611	21	2.0	22	84	16	58	57	2	0	40	1.11
3595214--3595452	41	5.8	42	80	11	237	30	22	22	24	1.99
3595234--3595432	103	1.9	103	94	2	355	32	21	22	23	1.98
3595214--3595493	62	4.5	62	85	9	315	29	22	22	26	1.99
3595214--3595495	41	6.8	41	78	16	221	29	21	21	26	1.99
3595214--3595519	21	14.8	21	75	17	203	29	22	21	26	1.99
3595462--3595529	21	3.2	21	91	0	100	29	25	22	23	1.99
3595612--3595655	6	7.5	6	97	2	81	31	52	15	0	1.44
3596163--3596202	6	7.0	6	97	2	66	0	17	52	30	1.45
3596292--3596577	21	13.8	21	72	15	125	28	22	20	28	1.99
3596303--3596540	83	2.9	83	87	5	331	27	21	21	29	1.98
3596441--3596557	62	1.9	62	91	3	191	23	23	20	32	1.98
3596297--3596577	83	3.4	83	84	5	329	28	22	20	28	1.99
3599072--3599127	20	2.7	20	88	5	76	17	23	39	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3601672--3601732	23	2.7	23	92	2	97	18	26	32	22	1.97
3608439--3608478	20	2.0	20	90	0	62	47	12	10	30	1.74
3609066--3609105	20	2.0	20	100	0	80	25	15	10	50	1.74
3611788--3611821	2	17.5	2	87	6	52	47	0	2	50	1.16
3612827--3612853	14	1.9	14	100	0	54	37	7	18	37	1.79
3619973--3620039	24	2.8	24	80	8	82	34	11	32	20	1.90
3625210--3625334	39	3.2	39	93	0	214	27	20	23	28	1.99
3627817--3627902	12	7.0	13	83	11	94	33	0	0	66	0.92
3627829--3627902	3	25.0	3	86	8	107	36	0	0	63	0.95
3627818--3627902	17	5.0	17	84	7	102	34	0	0	65	0.93
3627829--3627902	28	2.8	28	87	8	109	36	0	0	63	0.95
3630069--3630125	24	2.6	21	86	13	80	17	22	17	42	1.89
3630550--3630622	32	2.3	32	87	0	110	32	17	15	34	1.91
3631627--3631655	15	1.9	15	100	0	58	68	0	0	31	0.89
3636070--3636284	35	6.1	35	91	1	331	32	20	25	22	1.98
3638793--3638832	2	20.0	2	100	0	80	50	0	0	50	1.00
3640370--3640451	35	2.3	36	82	6	103	60	4	2	31	1.30
3640597--3640622	7	3.7	7	100	0	52	57	0	0	42	0.98
3642931--3642998	23	3.0	23	80	8	84	17	23	26	32	1.97
3645465--3645558	28	3.3	28	80	5	91	35	8	6	50	1.59
3645507--3645627	29	4.1	30	81	6	131	33	15	4	45	1.68
3645541--3645638	29	3.4	28	87	5	124	28	15	6	50	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3650101--3650196	3	32.0	3	70	4	68	35	0	4	60	1.16
3650119--3650196	9	8.7	9	80	5	77	38	0	2	58	1.12
3650696--3650757	31	2.0	31	96	0	115	30	22	24	22	1.99
3670395--3670454	31	1.9	32	93	3	104	26	25	15	33	1.95
3685235--3685735	264	1.9	263	87	9	754	40	18	12	28	1.87
3688713--3688753	18	2.3	18	100	0	82	24	9	26	39	1.86
3693856--3693933	38	2.1	38	100	0	156	33	19	15	32	1.93
3695764--3695795	16	2.1	16	94	5	57	65	0	15	18	1.27
3696498--3696535	17	2.2	17	100	0	76	44	0	18	36	1.50
3697190--3697248	20	3.0	21	78	12	79	33	16	28	20	1.95
3702655--3702703	24	2.0	24	92	0	80	34	24	10	30	1.89
3703761--3703893	45	3.0	44	82	7	162	21	19	29	29	1.98
3705841--3705898	23	2.4	24	80	11	64	60	3	5	31	1.35
3708135--3708186	22	2.5	22	84	6	63	50	5	19	25	1.69
3710700--3710742	22	2.0	21	86	4	59	69	2	4	23	1.18
3711239--3711290	21	2.5	21	87	0	68	30	25	19	25	1.98
3715020--3715101	21	3.8	21	75	10	67	14	24	37	23	1.92
3715043--3715103	20	2.9	21	82	7	70	14	26	36	22	1.93
3719172--3719203	16	2.0	16	100	0	64	25	12	12	50	1.75
3722491--3722525	15	2.2	16	90	5	54	51	2	14	31	1.57
3725407--3725465	31	1.9	31	89	0	91	30	10	23	35	1.88
3733860--3733885	11	2.4	11	100	0	52	15	15	0	69	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3737674--3737791	24	4.9	24	85	5	121	39	19	15	25	1.90
3737674--3737788	48	2.4	48	89	2	169	40	19	15	25	1.91
3737705--3737805	48	2.1	48	83	7	125	42	17	14	24	1.88
3740290--3740331	13	3.2	13	89	0	66	16	19	45	19	1.86
3740348--3740387	21	1.9	21	89	0	62	37	22	22	17	1.94
3747183--3747263	33	2.4	32	75	15	76	23	6	6	64	1.40
3752847--3753076	72	3.2	71	87	8	319	28	23	11	36	1.90
3752892--3753230	34	9.3	38	64	15	140	30	22	9	37	1.87
3752994--3753157	80	2.0	84	83	7	212	27	23	10	38	1.88
3760792--3760847	21	2.7	19	75	17	58	32	23	12	32	1.92
3763074--3763108	18	1.9	18	88	0	52	51	2	8	37	1.47
3770348--3770404	27	2.1	27	100	0	114	40	21	3	35	1.70
3774756--3774830	38	2.0	37	84	5	98	48	2	1	48	1.24
3775340--3775399	31	1.9	32	86	3	86	46	10	13	30	1.75
3777421--3777514	47	2.0	47	97	0	179	36	17	9	37	1.82
3778456--3778480	13	1.9	13	100	0	50	48	16	12	24	1.79
3784963--3785037	22	3.4	22	73	10	73	30	21	20	28	1.98
3799035--3799068	17	1.9	18	88	5	52	29	0	5	64	1.17
3799035--3799105	29	2.5	30	82	13	96	32	1	2	63	1.18
3801307--3801331	13	1.9	13	100	0	50	20	0	8	72	1.10
3803090--3803114	11	2.3	11	100	0	50	32	8	20	40	1.81
3809314--3809375	29	2.1	29	90	0	97	14	40	20	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3816382--3816408	14	1.9	14	100	0	54	22	14	14	48	1.81
3820944--3821001	23	2.6	23	75	2	64	25	27	3	43	1.71
3823020--3823059	21	2.0	20	90	5	62	42	12	12	32	1.80
3827973--3828035	17	3.7	17	95	0	108	39	6	6	47	1.54
3828138--3828183	24	1.9	24	95	0	83	45	23	2	28	1.65
3841064--3841121	22	2.8	20	73	17	55	22	29	24	24	1.99
3855340--3855420	41	1.9	43	87	5	121	32	20	18	28	1.97
3855527--3855599	20	3.5	20	71	14	67	23	23	23	30	1.99
3855546--3855610	20	3.1	21	70	16	71	26	18	24	30	1.98
3855528--3855619	42	2.2	42	94	0	157	26	21	21	30	1.99

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   56