genome.fa.s8645.2.7.7.80.10.50.1000.20.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: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4138222

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  20  of  22  ( 2605 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)
3554513--3554596	33	2.5	32	88	7	123	45	19	22	13	1.84
3554535--3554601	19	3.8	19	70	23	65	46	19	22	11	1.82
3554439--3554601	20	8.9	19	73	14	60	42	21	20	15	1.89
3554607--3554673	20	3.7	19	73	20	72	11	22	19	46	1.82
3554611--3554706	33	2.9	34	90	3	149	12	23	20	42	1.86
3554633--3554686	14	3.5	14	73	22	54	11	24	20	44	1.83
3556234--3556340	42	2.5	42	74	5	101	24	19	34	21	1.96
3556803--3556889	20	4.3	20	95	0	129	35	21	19	22	1.96
3556906--3557002	20	5.3	19	68	16	60	22	20	14	42	1.88
3556950--3557056	20	5.7	20	75	12	93	18	21	18	41	1.91
3556908--3557047	73	1.9	73	89	0	217	20	21	16	42	1.89
3558953--3559022	20	3.5	20	90	0	86	41	25	17	15	1.89
3558952--3559065	33	3.2	33	73	17	95	43	24	18	13	1.85
3559390--3559455	22	3.0	22	90	0	105	21	15	39	24	1.91
3559633--3559684	20	2.6	20	100	0	104	23	21	25	30	1.99
3559671--3559744	20	3.7	20	80	3	94	20	18	20	40	1.92
3559651--3559744	41	2.3	40	88	1	134	21	19	21	38	1.94
3559741--3559807	21	3.2	21	95	0	116	40	17	25	16	1.90
3562608--3562689	40	2.0	40	100	0	164	21	8	12	57	1.61
3566073--3566131	31	1.9	31	92	0	100	40	6	10	42	1.65
3566156--3566198	22	2.0	22	95	0	77	51	11	0	37	1.39
3566158--3566206	22	2.2	22	85	3	62	55	12	0	32	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3566178--3566880	32	24.7	32	73	20	542	52	12	0	34	1.44
3566182--3566716	26	19.0	26	66	17	102	53	13	0	33	1.41
3566326--3566368	22	2.0	22	95	0	77	48	13	0	37	1.43
3566380--3566421	22	2.0	22	90	4	68	50	11	0	38	1.40
3566489--3566546	18	3.4	18	70	18	61	56	13	0	29	1.38
3566507--3566592	14	5.6	14	67	20	55	55	8	0	36	1.29
3566146--3566569	223	1.9	224	96	0	787	53	12	0	34	1.39
3566464--3566879	54	7.3	54	79	11	395	52	12	0	34	1.45
3566298--3566771	202	2.4	201	92	4	790	52	12	0	33	1.43
3566751--3566793	22	2.0	22	100	0	86	51	13	0	34	1.42
3566753--3566801	22	2.2	22	88	3	71	55	14	0	30	1.40
3566489--3566950	224	2.0	226	89	5	720	52	12	0	34	1.45
3566805--3566847	22	2.0	22	95	0	77	48	13	2	34	1.56
3566890--3566985	22	4.2	22	68	7	75	52	9	0	38	1.34
3566930--3567032	15	6.5	15	80	15	100	50	2	0	46	1.16
3566904--3567017	52	2.3	49	85	7	142	49	5	0	45	1.24
3566890--3567032	67	2.1	67	88	5	207	50	6	0	43	1.27
3566145--3566950	425	1.9	422	94	1	1400	52	12	0	34	1.43
3566987--3567080	18	5.4	18	73	13	58	46	2	0	51	1.13
3567776--3567877	50	2.0	50	98	0	195	17	15	22	44	1.87
3584170--3584211	21	2.0	21	90	0	66	30	7	7	54	1.54
3584206--3584307	32	3.2	32	86	5	136	33	6	14	45	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3584368--3584401	17	2.0	17	100	0	68	47	11	5	35	1.65
3586605--3586647	14	3.1	14	87	12	70	51	13	20	13	1.76
3588565--3588669	36	2.9	36	91	0	174	23	19	25	31	1.98
3600156--3600206	26	2.0	26	84	0	66	35	17	19	27	1.94
3600254--3600345	38	2.3	40	87	7	134	33	17	25	23	1.96
3608076--3608109	2	17.0	2	93	0	59	50	2	0	47	1.16
3608417--3608494	23	3.3	23	85	1	102	33	23	19	24	1.97
3609354--3609390	2	18.5	2	100	0	74	51	0	0	48	1.00
3609420--3609496	3	24.7	3	80	7	64	44	1	0	54	1.08
3609420--3609496	25	3.2	25	89	5	115	44	1	0	54	1.08
3609428--3609499	25	2.9	25	91	2	119	44	2	0	52	1.15
3609821--3610168	144	2.4	143	80	7	373	33	18	25	21	1.97
3610835--3610869	2	18.0	2	88	5	54	51	0	0	48	1.00
3613002--3613143	55	2.6	55	88	2	205	40	13	25	21	1.89
3616499--3616602	49	2.1	49	82	12	124	75	8	14	1	1.13
3616523--3616592	18	4.2	17	71	20	58	75	7	14	2	1.12
3616563--3616603	6	6.7	6	83	5	55	80	4	14	0	0.87
3617637--3617710	32	2.3	32	85	0	94	35	12	24	28	1.91
3617986--3618109	43	2.9	43	86	0	167	29	30	19	20	1.97
3618321--3618444	43	2.9	43	83	0	149	31	30	18	19	1.96
3617871--3618991	335	3.3	335	94	0	1909	32	25	19	23	1.97
3618656--3618779	43	2.9	43	85	2	160	30	29	19	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3619082--3619160	36	2.2	36	88	0	113	29	20	11	39	1.87
3619437--3619519	3	26.7	3	81	7	67	43	2	0	54	1.13
3619447--3619514	15	4.7	15	78	7	77	42	2	0	54	1.15
3619437--3619524	28	3.4	25	77	13	90	43	3	0	53	1.17
3619435--3619514	40	2.0	40	82	4	99	45	2	0	52	1.14
3619791--3620099	145	2.1	145	87	1	440	31	23	24	20	1.98
3619798--3620325	145	3.6	144	77	6	377	32	22	24	21	1.98
3625921--3625998	23	3.3	23	81	1	93	34	23	17	24	1.96
3626017--3626318	103	3.0	103	96	1	547	36	23	13	26	1.92
3630692--3630760	23	3.0	23	77	8	77	28	24	24	21	1.99
3634599--3634644	22	2.1	22	100	0	92	17	13	17	52	1.75
3637898--3637938	15	2.7	15	84	3	55	21	2	12	63	1.40
3640808--3640894	34	2.7	31	78	13	95	47	2	5	44	1.39
3640809--3641048	33	7.2	32	71	19	109	46	4	7	42	1.51
3640841--3640961	33	3.5	35	82	10	126	44	3	7	44	1.48
3641022--3641098	31	2.6	31	79	10	79	45	6	7	40	1.59
3641042--3641106	29	2.1	29	86	8	85	36	7	9	46	1.65
3641197--3641221	13	1.9	13	100	0	50	28	0	0	72	0.86
3641931--3642054	62	2.0	62	100	0	248	11	25	40	22	1.87
3643737--3643917	92	2.0	92	92	0	299	39	13	13	33	1.85
3645902--3645964	28	2.2	28	100	0	126	23	15	20	39	1.91
3647226--3647284	31	1.9	31	96	0	109	35	11	20	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3648733--3648769	19	1.9	19	89	10	58	35	2	2	59	1.26
3650492--3650923	220	2.0	212	94	5	760	29	18	23	28	1.98
3652924--3652983	29	2.0	31	90	6	97	35	6	16	41	1.75
3653162--3653201	20	2.0	20	95	0	71	25	17	30	27	1.97
3653487--3653544	31	1.9	30	89	3	89	29	18	27	24	1.98
3655164--3655209	20	2.2	21	96	3	85	32	15	8	43	1.77
3665254--3665545	149	2.0	150	83	7	380	41	18	20	19	1.90
3677135--3677177	20	2.2	20	86	0	59	34	16	13	34	1.88
3679785--3679825	21	2.0	21	90	0	64	63	0	21	14	1.30
3687517--3687559	20	2.2	20	86	0	59	34	16	13	34	1.88
3692957--3693014	29	2.1	28	81	15	68	46	10	15	27	1.78
3693130--3693209	40	2.0	40	88	7	119	36	11	10	42	1.74
3696384--3696433	26	1.9	26	87	0	73	50	6	14	30	1.66
3698144--3698186	2	21.5	2	100	0	86	51	0	0	48	1.00
3700530--3700645	32	3.6	31	79	7	126	38	33	12	14	1.85
3700535--3700660	64	2.0	64	82	6	157	38	34	11	15	1.84
3703599--3703635	18	2.1	18	89	0	56	29	13	43	13	1.82
3712795--3713178	126	3.0	127	95	1	709	37	18	20	23	1.94
3730512--3730899	184	2.1	184	91	1	627	45	8	3	42	1.52
3733612--3733649	2	19.0	2	100	0	76	50	0	0	50	1.00
3736494--3736555	28	2.5	23	75	22	70	32	24	19	24	1.98
3736504--3736565	28	2.2	28	97	0	115	33	25	14	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3736522--3736590	28	2.5	28	85	0	84	36	28	15	18	1.92
3736992--3737030	2	20.0	2	94	5	71	51	0	0	48	1.00
3748214--3748253	21	1.9	21	89	0	62	25	40	25	10	1.86
3752883--3752924	2	21.0	2	100	0	84	50	0	0	50	1.00
3755273--3755317	22	2.0	22	86	4	63	28	22	15	33	1.95
3755279--3755339	22	2.8	22	85	5	79	26	26	18	29	1.98
3755951--3755994	20	2.2	20	100	0	88	22	31	31	13	1.93
3759048--3759111	2	32.0	2	100	0	128	50	0	0	50	1.00
3760681--3760778	45	2.1	48	86	5	139	29	12	18	39	1.87
3770434--3770515	22	3.6	23	74	12	71	80	0	10	8	0.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22