genome.fa.s8323.2.7.7.80.10.50.1000.18.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

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   

This is table  18  of  26  ( 3017 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)
3517477--3517549	23	3.2	23	86	3	85	35	5	19	39	1.75
3517907--3517967	21	2.7	23	87	5	81	36	6	19	37	1.78
3517931--3517982	21	2.5	21	87	6	70	36	1	19	42	1.62
3517378--3518397	428	2.4	431	98	1	1994	40	8	13	38	1.74
3518335--3518399	23	2.8	23	90	0	94	35	7	18	38	1.80
3518603--3518639	18	2.1	18	89	0	56	32	5	10	51	1.60
3518595--3518641	24	2.0	24	86	0	67	34	4	14	46	1.64
3521399--3521430	3	10.7	3	100	0	64	68	0	0	31	0.90
3521668--3521773	56	1.9	55	96	1	194	38	6	14	40	1.72
3522955--3522999	2	23.0	2	95	4	83	51	0	0	48	1.00
3535050--3535090	17	2.3	18	91	4	66	31	4	0	63	1.15
3537373--3537453	35	2.3	32	77	20	83	25	8	9	55	1.61
3541901--3541953	10	6.1	10	68	31	50	58	20	11	9	1.60
3541905--3541979	16	4.7	16	94	0	132	57	21	12	9	1.62
3542190--3542277	11	7.8	11	74	5	68	27	21	20	30	1.98
3542223--3542266	12	3.8	12	78	6	54	22	20	20	36	1.95
3542212--3542277	23	2.9	23	93	0	105	24	19	21	34	1.96
3543475--3543542	21	3.2	21	85	4	84	23	0	27	48	1.51
3543494--3543546	7	7.6	7	78	16	56	22	0	28	49	1.50
3543559--3543604	21	2.1	22	84	4	58	21	0	30	47	1.51
3543566--3543604	14	2.8	14	80	0	51	20	0	28	51	1.48
3543733--3543762	14	2.1	14	93	0	51	56	20	13	10	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3543729--3543774	24	1.9	24	90	0	74	52	21	13	13	1.73
3543904--3543989	27	3.2	27	100	0	172	25	22	20	31	1.98
3543925--3543971	16	3.2	16	66	27	50	25	21	21	31	1.98
3544866--3544890	2	12.5	2	100	0	50	48	0	0	52	1.00
3544868--3544921	8	6.5	8	81	8	54	37	0	11	51	1.37
3554812--3555059	14	17.1	14	72	15	159	44	3	4	47	1.40
3554826--3555054	28	7.9	28	83	10	189	43	3	3	48	1.40
3554799--3555025	42	5.2	42	78	14	217	42	3	5	48	1.42
3554826--3554984	28	5.4	28	85	11	201	44	3	3	49	1.34
3554974--3555083	56	2.0	56	81	3	132	41	6	5	46	1.52
3557931--3558018	33	2.7	33	86	8	110	36	28	20	14	1.92
3557931--3558015	32	2.6	31	85	10	109	36	28	21	14	1.92
3560409--3560457	16	3.1	15	77	16	55	38	10	6	44	1.63
3563995--3564038	9	4.8	9	80	5	52	65	0	0	34	0.93
3564007--3564050	3	14.0	3	81	9	52	63	2	0	34	1.07
3564013--3564050	16	2.4	16	86	0	58	65	2	0	31	1.06
3564295--3565510	94	12.6	104	88	5	623	23	17	24	34	1.96
3564435--3565481	94	11.1	94	92	1	1632	22	17	24	34	1.96
3570764--3570810	3	15.0	3	82	8	58	63	2	0	34	1.06
3573263--3573332	35	2.0	35	100	0	140	34	2	8	54	1.46
3573254--3573323	35	2.1	30	80	19	77	35	4	8	51	1.52
3573273--3573343	35	2.1	34	82	10	85	38	1	9	50	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3589139--3589181	20	2.2	20	84	8	54	27	11	4	55	1.55
3591066--3591129	17	3.7	17	89	2	92	29	28	7	34	1.85
3601292--3601415	24	5.2	24	83	0	149	41	17	12	27	1.86
3601292--3601415	48	2.6	48	86	0	167	41	17	12	27	1.86
3602094--3602271	29	6.3	28	78	11	134	47	15	1	35	1.53
3602115--3602270	29	5.6	28	79	10	149	48	14	1	35	1.52
3602101--3602269	56	3.0	55	78	6	180	48	13	1	36	1.50
3603950--3604010	23	2.7	23	94	0	104	27	26	26	19	1.99
3604034--3604251	103	2.1	103	95	0	391	37	23	13	26	1.91
3609299--3609367	23	3.0	23	82	0	84	28	26	24	20	1.99
3609383--3609600	103	2.1	103	96	0	400	36	23	13	26	1.92
3610965--3611025	20	2.9	21	87	7	97	19	24	24	31	1.98
3617181--3617290	24	4.6	24	87	0	157	43	15	10	30	1.81
3617181--3617290	48	2.3	48	93	0	184	43	15	10	30	1.81
3617992--3618152	29	5.8	29	76	8	138	49	14	1	34	1.55
3618161--3618195	18	1.9	18	94	0	61	11	25	45	17	1.81
3618172--3618196	13	1.9	13	100	0	50	12	24	48	16	1.79
3620097--3620260	32	5.1	32	72	12	104	50	7	5	35	1.55
3619838--3620240	197	2.0	198	85	2	551	46	9	6	37	1.63
3620202--3620264	30	2.0	32	84	6	85	55	6	6	31	1.50
3620204--3620276	32	2.3	32	83	9	87	60	5	6	27	1.45
3625335--3625373	20	2.0	20	85	10	53	56	5	0	38	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3631691--3631718	14	2.0	14	100	0	56	42	21	7	28	1.79
3637487--3637530	21	2.2	20	84	12	54	52	2	9	36	1.46
3641340--3641420	23	3.6	22	78	8	92	24	25	24	24	2.00
3642568--3642610	21	2.0	21	81	0	50	9	39	16	34	1.80
3643611--3643782	90	1.9	91	85	3	240	29	23	17	30	1.97
3648565--3648604	18	2.2	18	86	8	55	22	15	32	30	1.94
3653795--3653837	15	2.8	15	82	3	50	6	6	2	83	0.88
3658477--3658568	21	4.1	21	71	13	67	50	8	3	38	1.50
3665431--3665472	17	2.3	19	88	8	61	54	2	0	42	1.13
3669874--3669925	3	17.3	3	80	7	61	40	0	0	59	0.97
3669874--3669929	18	3.1	18	90	7	87	41	0	0	58	0.98
3669936--3669990	26	2.1	26	93	0	92	41	30	18	9	1.81
3670179--3670215	18	2.1	17	95	5	65	64	8	27	0	1.21
3671923--3671974	20	2.6	21	76	11	56	26	7	0	65	1.20
3678267--3678490	114	2.0	114	91	0	367	34	16	20	29	1.94
3679435--3679606	76	2.3	75	80	4	202	32	16	22	28	1.96
3680955--3681009	22	2.5	22	93	0	101	34	10	14	40	1.81
3681684--3682243	76	7.4	76	92	0	917	23	20	22	34	1.97
3681684--3682243	151	3.7	151	92	0	958	23	20	22	34	1.97
3681684--3682244	227	2.5	227	94	0	962	22	20	22	34	1.97
3682404--3682458	3	18.3	3	81	7	67	40	0	0	60	0.97
3682404--3682458	21	2.6	22	94	5	96	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3682469--3682523	26	2.1	26	86	0	74	41	27	18	12	1.86
3685456--3685541	24	3.6	24	81	12	97	11	13	23	51	1.74
3685480--3685534	14	4.2	14	82	17	73	9	12	25	52	1.68
3685478--3685541	24	2.7	24	95	0	110	10	12	23	53	1.70
3686279--3686352	10	7.6	10	69	22	59	10	12	20	56	1.65
3686284--3686348	16	4.1	16	87	0	103	9	13	21	55	1.66
3686418--3686450	16	2.1	16	100	0	66	6	12	24	57	1.57
3687005--3687043	20	2.0	19	85	5	51	53	17	25	2	1.56
3687233--3687279	24	1.9	25	86	4	69	42	12	21	23	1.87
3687696--3687736	22	1.9	21	90	5	64	26	0	2	70	0.99
3692137--3692267	65	2.0	65	92	2	219	46	22	10	19	1.81
3703779--3704004	64	3.5	64	79	9	248	32	20	19	27	1.96
3704658--3704765	15	7.2	15	97	0	198	13	24	33	28	1.94
3708714--3708939	64	3.5	64	80	9	257	32	20	19	28	1.97
3709593--3709685	15	6.2	15	94	0	168	13	21	33	31	1.93
3716817--3716855	19	2.0	20	85	9	55	69	0	2	28	1.02
3723848--3723890	22	2.0	22	85	0	59	53	6	4	34	1.49
3724381--3724418	16	2.3	17	86	4	51	15	23	34	26	1.95
3724444--3724483	17	2.4	17	86	0	53	17	20	32	30	1.95
3724627--3724662	16	2.3	15	90	4	54	52	5	0	41	1.24
3725872--3725909	18	2.0	19	85	10	51	55	7	10	26	1.61
3734616--3734645	14	2.1	14	100	0	60	40	13	20	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3740276--3740435	88	1.9	83	87	6	230	31	22	6	39	1.79
3740313--3740441	44	2.9	44	89	0	204	31	25	6	36	1.83
3740533--3740646	60	1.9	61	87	5	169	30	28	17	23	1.97
3745056--3745438	191	2.0	191	100	0	766	23	24	22	29	1.99
3749266--3749309	17	2.6	17	81	0	52	54	0	2	43	1.12
3754052--3754129	31	2.5	31	89	0	111	25	26	14	33	1.94
3756266--3756307	21	2.0	21	95	0	75	23	16	4	54	1.61
3767502--3767664	87	1.9	87	97	0	308	42	11	13	33	1.79
3767800--3769543	182	9.6	182	94	1	2990	28	17	13	41	1.86
3767800--3769543	725	2.4	724	94	1	3016	28	17	13	41	1.86

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