genome.fa.s7748.2.7.7.80.10.50.1000.18.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: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4568288

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   

This is table  18  of  24  ( 2778 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)
3429756--3429963	44	4.7	44	78	3	193	34	18	7	39	1.80
3429756--3429976	89	2.5	90	75	8	216	34	19	8	38	1.81
3429952--3429982	16	1.9	16	93	0	53	38	22	12	25	1.90
3430543--3430660	57	2.1	57	100	0	236	26	21	11	40	1.87
3436585--3436616	13	2.3	15	89	10	50	65	3	21	9	1.35
3441835--3442090	128	2.0	128	100	0	512	36	6	7	50	1.55
3442145--3442270	3	43.0	3	95	4	231	0	32	0	67	0.91
3442442--3442522	3	27.0	3	100	0	162	66	0	0	33	0.92
3443314--3443391	19	3.7	19	73	23	68	29	28	19	23	1.98
3443308--3443393	45	1.9	45	92	4	147	27	27	17	26	1.98
3454126--3454195	31	2.3	31	82	5	79	28	24	11	35	1.90
3454142--3454201	31	1.9	31	93	0	102	25	23	15	36	1.93
3455616--3455682	31	2.2	31	86	0	89	29	25	10	34	1.89
3455624--3455689	31	2.1	31	94	0	114	22	27	13	36	1.92
3458405--3458487	37	2.2	37	79	12	91	53	8	1	37	1.39
3459209--3459249	16	2.5	17	92	4	66	34	2	0	63	1.08
3459209--3459249	6	7.3	6	78	15	52	34	2	0	63	1.08
3461072--3461096	2	12.5	2	100	0	50	0	0	48	52	1.00
3462046--3462076	3	10.3	3	92	0	53	32	3	32	32	1.74
3464346--3464393	23	2.1	23	88	0	69	20	27	22	29	1.99
3464616--3464668	3	18.0	3	96	3	99	33	0	0	66	0.92
3470885--3470944	23	2.6	23	83	0	75	20	25	26	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3489318--3489351	15	2.3	15	89	0	50	32	32	17	17	1.94
3489436--3489516	29	2.8	29	92	3	128	17	23	17	41	1.89
3489893--3490053	64	2.5	64	81	7	193	28	19	18	33	1.95
3493351--3493409	25	2.4	25	83	8	68	49	6	5	38	1.52
3497579--3498242	182	3.6	182	83	4	766	42	12	17	27	1.85
3500096--3500151	24	2.5	22	77	13	60	39	0	8	51	1.33
3500800--3500838	18	2.2	18	100	0	78	56	0	38	5	1.22
3501140--3501175	17	2.1	17	100	0	72	50	8	11	30	1.67
3502325--3502377	19	2.8	19	94	0	88	32	3	11	52	1.55
3502707--3503671	198	4.9	198	93	1	1627	36	16	15	31	1.90
3504147--3504198	15	3.5	15	94	0	86	17	48	1	32	1.58
3505341--3505380	9	4.4	9	83	0	53	47	0	30	22	1.52
3508413--3508452	21	1.9	21	84	0	53	30	0	32	37	1.58
3509186--3509223	20	1.9	20	88	0	58	13	26	36	23	1.91
3512883--3512922	20	2.0	21	85	5	55	25	17	15	42	1.88
3513032--3513074	21	2.0	22	86	13	63	37	11	0	51	1.39
3517636--3517667	14	2.3	14	100	0	64	31	15	18	34	1.93
3517684--3517729	21	2.1	21	84	4	56	30	15	10	43	1.81
3517884--3517929	21	2.1	21	84	4	56	30	15	10	43	1.81
3517095--3518502	398	3.5	395	85	8	1666	40	16	13	30	1.86
3517650--3518304	198	3.3	200	97	0	1201	41	15	12	30	1.85
3518119--3518481	177	2.0	178	89	3	552	40	15	12	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3517760--3518369	200	3.1	198	73	18	418	42	15	12	29	1.85
3518944--3519019	36	2.1	36	85	7	100	47	1	3	47	1.29
3519159--3519202	20	2.3	19	81	11	54	20	25	6	47	1.74
3530821--3530868	23	2.1	23	100	0	96	12	8	35	43	1.73
3535054--3535093	2	20.0	2	100	0	80	50	0	0	50	1.00
3537097--3537144	21	2.3	21	89	3	71	25	18	14	41	1.88
3537160--3537308	20	7.5	20	77	10	96	42	20	16	20	1.89
3537076--3537308	60	3.8	60	76	9	206	37	21	16	24	1.93
3537935--3537988	24	2.2	24	93	0	90	40	20	18	20	1.91
3537935--3538002	24	2.8	24	84	0	64	38	20	17	23	1.93
3538730--3538768	15	2.5	15	83	4	51	66	0	5	28	1.12
3538893--3538949	19	3.1	19	79	5	71	33	8	19	38	1.82
3538936--3539028	20	4.7	20	85	5	107	29	11	23	35	1.90
3538936--3539008	19	3.7	19	90	5	101	31	9	23	35	1.87
3538996--3539107	20	5.6	20	82	10	99	17	16	25	41	1.89
3538916--3539066	60	2.6	59	78	5	162	25	11	23	40	1.87
3538936--3539107	40	4.3	41	76	14	130	23	13	23	38	1.91
3538917--3539107	60	3.2	61	79	11	150	24	13	23	39	1.90
3539328--3539370	15	2.7	15	92	7	68	62	0	0	37	0.95
3539328--3539379	17	3.2	17	86	10	81	61	0	0	38	0.96
3548221--3548269	19	2.7	17	84	9	53	26	20	28	24	1.99
3556919--3557128	65	3.2	64	80	6	219	27	18	23	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3560764--3560788	2	12.5	2	100	0	50	52	0	0	48	1.00
3566377--3566414	18	2.1	18	90	9	60	34	7	42	15	1.76
3566386--3566428	12	3.3	12	79	17	50	32	9	37	20	1.85
3566386--3566426	9	4.6	9	81	0	55	34	9	36	19	1.85
3568051--3568081	16	2.0	15	93	6	53	70	12	3	12	1.27
3574574--3574600	2	13.5	2	100	0	54	51	0	0	48	1.00
3580476--3580560	34	2.5	34	96	0	152	58	0	0	41	0.98
3589434--3589506	27	2.8	25	74	8	74	45	17	9	27	1.80
3589916--3589969	23	2.4	22	82	17	67	46	14	7	31	1.73
3590159--3590197	18	2.2	18	95	0	69	12	12	28	46	1.79
3593133--3593205	3	24.3	3	100	0	146	67	0	0	32	0.91
3593347--3593510	82	2.0	80	89	4	249	51	13	12	23	1.74
3593817--3593878	24	2.6	24	84	0	88	12	11	19	56	1.66
3594711--3594759	21	2.3	21	100	0	98	16	8	30	44	1.76
3596914--3596941	2	14.0	2	100	0	56	50	0	0	50	1.00
3597402--3597479	36	2.2	36	85	0	102	46	14	14	25	1.82
3602562--3602614	24	2.3	23	78	15	56	39	11	3	45	1.58
3605855--3605915	23	2.6	24	81	5	70	34	16	4	44	1.69
3613398--3613423	3	8.7	3	100	0	52	34	0	0	65	0.93
3613581--3613617	5	7.2	5	90	6	56	62	0	2	35	1.10
3615025--3615056	15	2.1	15	94	0	55	65	0	0	34	0.93
3615350--3615409	31	1.9	32	86	3	86	56	6	15	21	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3620030--3620104	15	4.9	15	71	24	59	26	2	1	69	1.10
3620006--3620060	19	2.9	19	78	7	58	25	0	5	69	1.10
3620039--3620124	42	2.1	42	85	10	115	30	3	1	65	1.17
3620039--3620122	40	2.1	40	82	14	102	29	3	1	65	1.17
3624855--3624880	2	13.0	2	100	0	52	50	0	50	0	1.00
3628029--3628096	33	2.1	33	86	8	95	39	17	29	13	1.88
3628887--3628996	41	2.7	41	83	6	143	33	13	16	36	1.88
3629364--3629477	41	2.7	41	80	6	122	27	18	20	34	1.96
3629362--3629477	42	2.8	39	77	12	106	26	18	19	34	1.96
3636497--3636582	21	4.1	21	81	3	93	38	19	39	2	1.65
3636505--3636595	21	4.3	20	78	10	76	39	19	38	2	1.64
3637018--3637162	43	3.4	43	80	3	150	26	22	20	30	1.98
3644627--3644916	151	1.9	151	88	1	438	38	12	14	34	1.83
3652982--3653082	23	4.3	23	84	1	103	29	22	23	23	1.99
3653089--3653306	103	2.1	103	94	0	382	37	23	12	26	1.91
3655127--3655207	32	2.5	32	78	11	85	28	9	20	40	1.85
3655580--3655610	16	1.9	16	93	0	53	9	6	45	38	1.63
3656761--3656819	28	2.1	28	84	6	75	42	18	5	33	1.72
3662119--3662166	23	2.1	23	84	0	60	43	0	6	50	1.27
3663211--3663253	20	2.1	20	86	4	59	32	6	16	44	1.74
3663211--3663286	20	4.1	20	68	25	58	34	5	15	44	1.69
3663229--3663333	35	2.9	35	87	9	142	36	3	14	45	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3663741--3663804	32	2.0	33	96	3	121	35	0	20	43	1.52
3663741--3663804	16	3.9	16	91	2	101	35	0	20	43	1.52
3664551--3664582	15	2.1	15	94	0	55	53	15	25	6	1.65
3667863--3667926	20	3.4	20	66	29	59	31	3	18	46	1.65
3667862--3667971	35	3.1	35	87	5	150	32	3	16	47	1.64
3669963--3670154	61	3.2	59	86	9	280	39	3	9	47	1.51
3670136--3670193	13	4.6	13	78	8	75	48	5	6	39	1.52
3671838--3671892	23	2.3	23	76	11	58	43	9	3	43	1.53
3671901--3671965	13	5.2	13	71	14	57	52	6	0	41	1.26
3671917--3671986	24	3.0	23	84	10	81	52	7	0	40	1.29

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