genome.fa.s9611.2.7.7.80.10.50.1000.13.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   

This is table  13  of  27  ( 3214 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)
3405612--3405669	6	9.7	6	75	20	59	17	36	1	44	1.59
3405612--3405673	24	2.6	24	92	2	99	16	38	1	43	1.57
3409393--3409432	21	2.0	21	90	5	64	25	22	15	37	1.93
3409566--3409786	119	1.8	119	82	4	284	48	9	14	28	1.74
3410449--3410479	2	15.5	2	100	0	62	51	0	0	48	1.00
3410478--3410503	4	6.5	4	100	0	52	50	0	0	50	1.00
3416621--3416707	35	2.5	34	80	12	97	54	10	8	27	1.62
3420072--3420109	2	19.0	2	100	0	76	50	0	0	50	1.00
3426682--3426733	12	4.3	12	85	0	68	11	15	46	26	1.80
3428282--3428339	22	2.6	22	97	0	107	24	10	25	39	1.87
3428275--3428339	22	3.0	22	93	0	94	24	10	26	38	1.88
3431953--3432026	29	2.5	29	97	2	139	58	12	0	29	1.35
3451237--3451518	134	2.1	136	83	8	349	22	15	13	48	1.80
3455511--3455550	12	3.3	12	82	0	53	7	20	32	40	1.80
3470474--3470503	15	2.0	15	93	0	51	26	16	13	43	1.85
3483381--3483427	23	2.0	23	88	8	69	29	29	19	21	1.97
3483388--3483441	23	2.3	23	80	0	63	31	25	18	24	1.97
3484079--3484158	20	3.9	21	73	16	78	27	28	13	30	1.94
3498450--3498482	16	2.0	17	88	5	50	51	0	0	48	1.00
3498445--3498485	19	2.2	19	86	8	57	53	0	0	46	1.00
3498974--3499010	18	2.1	18	89	0	56	40	0	0	59	0.97
3500216--3500587	186	2.0	184	89	2	575	41	4	8	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3504773--3504811	19	1.9	20	85	15	53	41	10	0	48	1.37
3505830--3505868	19	2.0	20	85	5	53	56	0	0	43	0.99
3511687--3511717	6	5.2	6	100	0	62	32	0	67	0	0.91
3513250--3513303	24	2.3	23	83	6	63	42	5	0	51	1.25
3514880--3514904	2	12.5	2	100	0	50	48	0	0	52	1.00
3521505--3521593	26	3.5	27	80	11	82	38	1	2	58	1.18
3521526--3521593	26	2.6	27	83	9	86	38	0	1	60	1.06
3521612--3521722	30	3.8	29	77	13	102	56	0	5	37	1.22
3521715--3521812	28	3.2	31	76	16	55	54	2	3	40	1.28
3521750--3521839	28	3.3	27	77	13	87	54	1	1	43	1.14
3521773--3521837	25	2.5	26	83	11	80	52	0	1	46	1.10
3522282--3522325	23	2.0	22	86	13	63	54	15	11	18	1.70
3522595--3522622	2	14.0	2	100	0	56	50	0	0	50	1.00
3523438--3523484	22	2.1	22	100	0	94	19	0	31	48	1.49
3531334--3531379	2	23.0	2	100	0	92	50	0	0	50	1.00
3531586--3531628	2	21.5	2	100	0	86	48	0	0	51	1.00
3533311--3533464	72	2.1	72	90	0	236	38	9	16	35	1.81
3533330--3533481	72	2.1	72	87	0	214	39	11	15	32	1.84
3539486--3539520	18	2.0	18	94	5	63	17	34	8	40	1.80
3542136--3542163	14	2.0	14	100	0	56	35	14	7	42	1.73
3557076--3557101	8	3.2	8	100	0	52	26	0	0	73	0.84
3557578--3557648	32	2.2	31	82	5	79	42	2	2	52	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3562563--3562611	24	2.0	24	100	0	98	38	12	28	20	1.89
3566749--3566775	11	2.5	11	100	0	54	51	0	0	48	1.00
3567584--3567610	14	1.9	14	100	0	54	37	7	18	37	1.79
3567759--3567844	27	3.2	27	68	20	72	47	9	4	38	1.56
3570149--3570198	25	2.0	25	88	7	75	34	26	4	36	1.75
3586087--3586127	22	1.9	21	85	5	55	41	4	0	53	1.22
3586086--3586134	21	2.3	22	78	3	55	46	4	0	48	1.20
3589731--3589761	15	2.1	14	94	5	53	41	6	6	45	1.55
3595690--3595732	11	3.8	12	75	12	54	11	2	4	81	0.93
3595691--3595742	21	2.4	22	93	3	88	13	3	3	78	1.02
3596611--3596657	22	2.1	23	88	7	71	46	0	23	29	1.52
3597404--3597431	2	14.0	2	100	0	56	50	0	50	0	1.00
3598970--3599110	49	2.8	49	73	11	126	41	5	9	43	1.60
3602468--3602507	19	2.0	20	85	4	55	60	5	0	35	1.19
3603226--3603272	14	3.1	15	82	14	53	51	2	0	46	1.13
3604603--3604633	14	2.2	14	94	0	53	25	12	25	35	1.92
3604760--3604807	20	2.5	19	83	12	62	52	0	0	47	1.00
3604760--3604811	21	2.7	20	88	8	72	51	0	0	48	1.00
3604861--3604904	17	2.5	17	85	10	54	68	2	9	20	1.28
3605981--3606149	84	2.0	84	100	0	338	33	10	13	42	1.78
3611418--3611530	60	1.9	60	85	3	156	33	16	12	37	1.87
3613857--3613911	14	4.3	14	71	21	57	10	12	23	52	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3613858--3613918	23	2.6	24	86	2	88	11	11	22	54	1.68
3614638--3614696	16	3.7	16	95	0	109	8	11	22	57	1.61
3614760--3614792	16	2.1	16	100	0	66	6	12	24	57	1.57
3615857--3615888	15	2.1	16	94	5	57	53	0	0	46	1.00
3621110--3621139	14	2.1	14	93	0	51	46	3	0	50	1.18
3625514--3625563	23	2.1	24	82	10	59	66	8	22	4	1.35
3626754--3626911	21	7.8	20	72	7	95	38	25	16	19	1.92
3626878--3627125	20	12.5	20	84	3	241	36	25	18	19	1.94
3628021--3628045	12	2.1	12	100	0	50	72	0	28	0	0.86
3630125--3630222	19	5.4	19	84	13	143	14	22	17	45	1.84
3630106--3630222	53	2.2	53	98	1	227	13	23	17	44	1.85
3630329--3630365	14	2.6	14	91	0	65	45	21	0	32	1.52
3632345--3632401	14	3.7	14	77	20	60	45	22	21	10	1.82
3632326--3632418	33	2.8	33	95	0	168	47	21	20	10	1.80
3632289--3632423	19	7.6	19	76	16	128	45	23	19	11	1.82
3632419--3632547	19	7.3	19	75	17	125	8	17	28	45	1.77
3632419--3632510	33	2.8	33	93	3	150	7	18	28	45	1.76
3632591--3633157	93	6.1	93	98	0	1098	45	18	12	22	1.83
3634864--3634953	14	5.7	14	74	23	81	42	23	25	8	1.83
3634856--3634970	33	3.5	33	95	0	212	45	20	24	9	1.81
3634863--3634975	19	6.8	18	72	23	88	43	22	24	9	1.83
3634989--3635040	14	3.4	14	72	23	50	7	25	23	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3634971--3635051	33	2.5	33	91	0	126	8	23	20	46	1.78
3635027--3635104	41	1.9	41	94	0	138	11	26	16	44	1.82
3635028--3635103	21	3.7	21	82	3	100	10	26	17	46	1.80
3635183--3635253	33	2.2	33	89	0	106	47	16	23	11	1.79
3635629--3635822	20	9.6	20	82	5	221	19	19	25	35	1.95
3635629--3635822	60	3.2	60	83	0	253	19	19	25	35	1.95
3636298--3636369	28	2.5	28	86	4	90	31	6	5	55	1.50
3636723--3636773	5	10.4	5	79	12	61	21	1	1	74	1.02
3637212--3637237	13	2.0	13	100	0	52	84	7	0	7	0.77
3639710--3639761	4	12.0	4	80	15	59	3	26	0	69	1.06
3641200--3641337	56	2.5	56	93	0	240	28	25	10	34	1.90
3650468--3650493	3	8.7	3	100	0	52	69	0	0	30	0.89
3657117--3657175	29	2.0	29	100	0	118	40	25	20	13	1.89
3676798--3676837	16	2.4	17	87	4	55	22	0	2	75	0.93
3678613--3678642	2	15.0	2	100	0	60	50	50	0	0	1.00
3678642--3678686	2	23.0	2	95	4	83	51	0	0	48	1.00
3684249--3684395	35	4.2	35	85	9	167	33	5	19	41	1.75
3684284--3684344	21	3.2	21	65	29	64	31	4	21	42	1.74
3684276--3684394	35	3.3	37	88	8	174	31	5	19	43	1.72
3684249--3684392	72	2.1	69	84	7	184	33	5	19	41	1.75
3688858--3688918	21	3.2	21	65	29	64	31	4	21	42	1.74
3688850--3688968	35	3.3	37	88	8	174	31	5	19	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3697068--3697120	2	26.5	2	100	0	106	50	0	0	49	1.00
3710621--3710784	67	2.5	65	89	4	222	29	23	18	28	1.98
3710621--3710786	64	2.5	65	89	3	235	29	23	18	28	1.97
3717996--3718039	21	2.1	21	82	0	52	9	38	15	36	1.80
3718627--3718653	2	13.5	2	100	0	54	48	0	0	51	1.00
3719089--3719278	65	2.9	64	81	11	194	32	24	17	25	1.97
3719274--3719318	19	2.4	19	100	0	90	22	31	20	26	1.98
3729311--3729381	5	14.2	5	100	0	142	60	39	0	0	0.97
3731867--3731893	14	1.9	14	100	0	54	29	0	7	62	1.22
3737076--3737359	140	2.0	140	98	0	550	41	11	14	32	1.82

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