genome.fa.s8750.2.7.7.80.10.50.1000.18.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: VEPZ01008750.1 Hibiscus syriacus cultivar Beakdansim tig00111841_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3719443

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  18  of  18  ( 2144 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)
3527939--3527997	31	1.9	31	90	10	95	40	15	15	28	1.87
3528035--3528138	36	2.9	36	85	0	145	35	11	19	33	1.88
3528200--3528296	37	2.7	37	84	7	128	41	12	17	28	1.86
3528032--3528619	175	3.4	173	88	5	784	37	12	18	32	1.88
3528383--3528471	37	2.4	37	87	5	119	39	13	17	29	1.88
3528413--3528487	37	2.0	38	89	5	118	38	10	20	30	1.86
3528418--3528498	36	2.2	37	82	6	94	35	13	22	28	1.92
3530396--3530436	20	2.0	20	100	0	82	36	14	19	29	1.92
3531002--3531067	27	2.4	28	80	14	75	50	12	19	18	1.78
3531027--3531064	12	2.8	13	78	21	51	50	15	21	13	1.78
3535347--3535401	3	18.3	3	100	0	110	65	0	0	34	0.93
3546006--3546168	83	2.0	83	83	2	211	30	9	17	42	1.81
3550905--3550945	2	20.5	2	100	0	82	51	0	0	48	1.00
3552347--3552416	31	2.3	31	84	0	86	24	10	11	54	1.66
3553710--3553783	31	2.4	31	93	0	130	50	17	12	20	1.78
3557196--3557229	17	1.9	17	88	5	50	79	5	11	2	1.02
3557219--3557273	9	6.4	9	73	10	53	78	10	1	9	1.05
3557218--3557280	25	2.5	25	84	0	81	79	9	1	9	1.01
3558012--3558052	20	2.1	19	95	4	73	58	0	0	41	0.98
3560411--3560444	2	17.0	2	100	0	68	50	0	0	50	1.00
3561476--3561820	174	2.0	171	97	2	656	42	16	13	27	1.85
3561921--3561955	15	2.4	14	90	4	52	74	0	14	11	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3563118--3563296	75	2.4	75	89	0	259	20	20	26	32	1.97
3563813--3563847	18	1.9	18	88	0	52	51	17	20	11	1.75
3564251--3564549	77	3.9	77	85	2	384	34	16	19	28	1.94
3564807--3564843	3	12.3	3	100	0	74	32	0	0	67	0.91
3566691--3566733	19	2.1	21	87	8	63	32	9	0	58	1.30
3576992--3577022	3	10.3	3	100	0	62	0	32	0	67	0.91
3577023--3577063	18	2.2	19	91	4	66	9	9	4	75	1.17
3577022--3577063	19	2.2	19	91	8	68	9	9	4	76	1.15
3577030--3577069	19	2.2	18	86	4	53	12	10	5	72	1.26
3577024--3577094	24	3.3	22	79	15	67	15	9	4	70	1.30
3586066--3586412	188	1.8	190	87	2	520	40	5	9	44	1.59
3587244--3587309	33	2.0	33	93	0	114	39	12	9	39	1.74
3590166--3590522	83	4.4	83	75	10	299	31	18	18	31	1.95
3601401--3601458	26	2.2	26	93	0	98	43	13	6	36	1.71
3602435--3602469	18	1.9	18	94	0	61	54	0	0	45	0.99
3603836--3603887	21	2.5	21	81	3	61	38	19	25	17	1.93
3603873--3603950	41	1.9	41	89	0	120	38	23	15	23	1.92
3603876--3603969	20	4.7	20	80	7	91	32	25	17	24	1.96
3604481--3604546	19	3.5	19	85	0	87	46	25	16	10	1.79
3604548--3604623	39	2.0	38	94	2	134	11	19	22	46	1.82
3604542--3604725	19	10.1	19	73	13	145	13	21	21	43	1.86
3604542--3604725	33	5.1	37	75	14	143	13	21	21	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3606455--3606691	118	2.0	119	95	4	426	21	8	17	52	1.71
3607681--3607733	23	2.3	23	86	0	79	35	20	16	26	1.94
3608739--3608796	20	2.9	20	94	0	98	37	22	22	17	1.93
3608869--3608938	14	4.8	14	71	22	63	11	21	18	48	1.79
3608860--3608936	26	3.2	26	74	25	96	12	22	18	46	1.82
3608833--3609010	19	9.4	19	83	14	217	14	21	17	46	1.83
3608815--3609010	52	4.3	45	80	16	192	13	21	18	46	1.83
3610957--3611000	19	2.4	19	92	3	72	31	27	25	15	1.96
3610994--3611070	31	2.4	31	85	8	84	45	25	18	10	1.81
3611012--3611070	31	1.9	31	93	6	102	45	27	18	8	1.78
3611023--3611081	18	3.6	18	70	27	58	45	28	16	8	1.77
3611012--3611081	31	2.3	30	87	9	97	45	28	17	8	1.77
3611081--3611246	46	3.6	46	96	0	296	31	18	6	42	1.76
3611650--3611718	35	2.0	35	97	2	131	20	30	31	17	1.95
3616964--3617059	38	2.5	38	87	0	138	22	25	23	28	2.00
3617208--3617404	46	4.3	46	96	0	351	32	17	6	43	1.75
3617812--3617881	34	2.0	35	83	5	88	21	31	31	15	1.95
3618404--3618434	11	2.8	11	90	0	53	54	0	38	6	1.26
3619383--3619473	45	2.0	45	91	0	146	27	29	7	35	1.85
3620252--3620432	37	4.9	36	74	17	113	45	2	8	43	1.47
3620252--3620462	35	5.8	36	73	14	105	44	2	8	44	1.47
3620327--3620424	41	2.5	39	85	6	117	48	2	7	41	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3620329--3620490	35	4.4	36	83	9	186	44	1	8	45	1.45
3621741--3621773	13	2.6	13	90	4	50	27	0	0	72	0.85
3621762--3621965	22	8.9	22	67	22	77	18	3	2	75	1.08
3621752--3621966	14	14.1	14	69	22	91	19	3	2	74	1.07
3621727--3621877	55	2.8	52	80	13	155	15	7	2	74	1.16
3621900--3621980	4	19.8	4	77	16	69	20	1	2	75	0.99
3622825--3622872	22	2.2	22	85	3	71	37	10	6	45	1.64
3622826--3622867	22	1.9	22	95	0	75	42	11	7	38	1.69
3623919--3624009	29	3.1	29	69	12	85	43	4	1	50	1.29
3623897--3624009	60	1.9	60	87	3	165	43	3	3	49	1.37
3623935--3623973	19	2.1	19	90	0	60	48	2	0	48	1.15
3624120--3624176	28	2.0	28	86	0	78	31	14	21	33	1.92
3625037--3625118	36	2.3	36	91	0	137	26	18	36	18	1.94
3628602--3628653	3	17.3	3	84	7	70	36	0	0	63	0.95
3629123--3629154	4	8.5	4	86	13	50	25	0	0	75	0.81
3629123--3629154	11	2.8	12	86	13	50	25	0	0	75	0.81
3652246--3652270	5	5.0	5	100	0	50	40	20	20	20	1.92
3653266--3653321	23	2.4	23	90	0	85	39	8	3	48	1.52
3656779--3656811	14	2.3	15	89	5	50	33	12	21	33	1.90
3656861--3656908	20	2.4	20	82	0	60	16	12	22	47	1.80
3658532--3658587	27	2.1	27	86	3	78	44	3	16	35	1.65
3661167--3661248	43	1.9	43	84	0	110	40	20	14	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3664055--3664097	13	3.3	13	90	0	68	13	20	44	20	1.86
3664077--3664121	18	2.5	18	85	0	63	15	20	44	20	1.87
3671253--3671295	13	3.3	13	86	0	68	16	25	41	16	1.88
3671275--3671318	18	2.4	18	96	0	79	11	22	47	18	1.80
3671248--3671295	13	3.7	13	78	10	53	18	25	39	16	1.91
3680348--3680394	21	2.2	21	92	0	76	40	27	10	21	1.86
3680348--3680409	21	2.9	21	85	2	70	38	29	8	24	1.84
3686474--3686517	13	3.4	13	93	0	79	15	6	20	56	1.62
3686503--3686550	20	2.4	19	80	16	53	20	10	20	47	1.79
3690413--3691266	466	1.8	466	85	2	1203	34	21	12	31	1.91
3695716--3695750	18	1.9	18	88	0	52	28	17	0	54	1.43
3699547--3699580	12	2.7	13	86	9	52	47	0	11	41	1.40
3701857--3701932	23	3.4	22	78	7	91	26	22	25	26	2.00
3705579--3705618	20	2.0	21	85	5	55	22	17	10	50	1.76
3718212--3718288	2	38.5	2	100	0	154	50	0	0	49	1.00
3718579--3718615	13	2.8	14	84	12	51	45	0	2	51	1.15

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18

The End!