genome.fa.s8243.2.7.7.80.10.50.1000.24.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   

This is table  24  of  49  ( 5786 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)
5134493--5134677	19	10.1	19	75	13	156	12	22	21	43	1.86
5134493--5134582	39	2.3	38	92	1	144	12	20	21	46	1.82
5134516--5134593	39	2.0	39	87	5	113	8	19	26	44	1.80
5134565--5134653	33	2.6	34	91	3	135	11	24	24	39	1.88
5136576--5136642	21	3.2	21	66	6	55	23	35	20	19	1.95
5136550--5136645	42	2.3	41	75	10	97	23	37	17	20	1.94
5138074--5138109	14	2.6	14	95	0	63	30	0	25	44	1.54
5138284--5138449	33	5.0	33	84	7	230	17	21	19	40	1.91
5138291--5138449	66	2.4	66	94	0	273	16	22	20	41	1.90
5141941--5141997	19	2.9	20	86	5	80	38	22	21	17	1.93
5142020--5142093	19	4.5	16	83	16	66	13	20	18	47	1.82
5142016--5142083	19	3.8	19	87	12	101	13	22	17	47	1.82
5144039--5144143	19	5.9	18	73	14	92	41	22	21	13	1.88
5144110--5144154	18	2.4	18	88	3	63	46	26	17	8	1.78
5144172--5144229	14	3.9	14	79	16	71	10	17	24	48	1.78
5144155--5144245	32	2.8	33	94	3	166	12	18	21	47	1.81
5144230--5144284	20	2.8	19	83	8	65	16	23	23	36	1.94
5144757--5144801	18	2.5	18	88	0	72	13	15	44	26	1.83
5146115--5146152	20	1.9	20	88	0	58	50	21	15	13	1.78
5146415--5146457	21	2.0	21	95	0	77	18	16	44	20	1.87
5146644--5146737	20	4.7	20	80	2	89	23	18	24	34	1.96
5146624--5146738	20	5.7	20	78	5	88	23	17	23	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5146727--5146819	20	4.5	21	78	4	100	17	24	18	39	1.91
5146666--5146800	41	3.3	41	82	4	139	19	21	20	38	1.94
5146727--5146819	41	2.3	41	100	0	186	17	24	18	39	1.91
5147247--5147308	23	2.9	22	74	9	65	16	20	16	46	1.83
5147675--5147728	25	2.3	24	87	9	76	53	3	11	31	1.53
5151972--5152087	42	2.8	42	94	0	205	16	17	19	46	1.84
5152268--5152353	15	5.9	15	73	16	65	45	0	0	54	0.99
5152291--5152347	17	3.4	17	75	15	57	45	0	0	54	0.99
5152274--5152382	36	3.1	35	79	11	114	45	0	0	53	1.06
5152267--5152376	27	3.9	28	77	17	104	46	0	0	53	1.00
5152319--5152386	29	2.3	30	82	14	88	47	1	0	51	1.09
5152552--5152641	20	4.5	20	97	0	162	36	13	10	40	1.78
5152624--5152705	15	5.5	15	88	2	121	35	19	7	37	1.80
5152624--5152705	30	2.8	30	94	1	139	35	19	7	37	1.80
5152624--5152710	45	2.0	44	93	2	147	33	19	6	40	1.78
5155656--5155683	14	2.0	14	100	0	56	35	28	14	21	1.92
5159253--5159283	16	1.9	16	93	0	53	48	0	3	48	1.17
5166309--5166369	21	3.0	21	71	19	58	34	3	3	59	1.30
5166513--5166576	25	2.6	25	69	18	62	59	1	1	37	1.16
5169701--5169728	2	14.0	2	100	0	56	50	0	0	50	1.00
5173186--5173226	15	2.7	15	96	0	73	46	0	46	7	1.30
5173406--5173447	22	2.0	22	85	4	59	83	0	11	4	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5174298--5174330	18	1.9	17	88	11	50	39	6	6	48	1.53
5179777--5179975	99	2.0	100	82	1	238	40	14	11	33	1.81
5182844--5182900	17	3.3	17	73	9	53	33	1	3	61	1.23
5197759--5197788	14	2.2	13	94	5	51	46	0	0	53	1.00
5198806--5198851	22	2.1	22	84	4	58	41	8	0	50	1.33
5199405--5199434	3	10.0	3	100	0	60	33	0	0	66	0.92
5200615--5200643	2	15.0	2	92	7	51	48	0	0	51	1.00
5201264--5201400	59	2.3	60	78	6	136	36	17	16	29	1.92
5206478--5206590	60	1.9	60	83	5	149	31	20	5	42	1.74
5207319--5207351	15	2.2	15	94	0	57	9	69	15	6	1.34
5219088--5219141	27	2.0	28	85	3	74	16	35	1	46	1.58
5218932--5219361	162	2.7	159	91	2	707	17	26	11	44	1.83
5221024--5221071	16	3.1	16	81	3	53	27	0	0	72	0.84
5223181--5223272	14	6.6	14	76	15	75	67	9	1	21	1.26
5223227--5223274	15	3.2	16	72	22	50	75	8	0	16	1.04
5223231--5223327	50	1.9	51	89	10	155	69	6	2	22	1.22
5223234--5223322	25	3.5	26	67	21	73	70	6	1	21	1.16
5230672--5230776	50	2.1	50	90	0	165	36	8	18	37	1.81
5236094--5236256	78	2.1	78	94	1	283	24	10	18	46	1.80
5236951--5237022	28	2.6	28	95	0	126	22	16	29	31	1.96
5237505--5238178	354	1.9	353	91	1	1100	39	8	20	30	1.83
5237822--5238656	198	4.2	198	89	1	1217	40	9	20	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5240245--5240323	23	3.4	23	96	0	140	32	26	24	16	1.96
5240245--5240349	46	2.3	46	85	3	140	32	24	22	20	1.98
5240969--5241092	64	1.9	65	81	1	151	20	20	21	37	1.95
5251131--5251167	13	2.8	13	100	0	74	8	21	16	54	1.68
5256785--5256821	13	2.8	13	100	0	74	8	21	16	54	1.68
5262407--5262443	13	2.8	13	100	0	74	8	21	16	54	1.68
5266457--5267072	225	2.8	226	93	3	1056	44	8	7	40	1.63
5267735--5267783	19	2.6	19	93	0	80	30	2	10	57	1.43
5267926--5269125	193	6.2	197	93	6	2043	35	15	16	32	1.90
5268837--5269413	291	2.0	290	92	5	981	37	16	15	31	1.89
5269031--5269223	99	2.0	98	98	1	377	39	18	12	30	1.87
5269126--5269670	190	2.8	194	94	4	955	36	15	16	31	1.91
5270131--5270156	13	2.0	13	100	0	52	30	7	7	53	1.57
5271027--5271082	23	2.4	23	87	0	85	35	7	19	37	1.79
5271040--5271091	23	2.3	23	90	6	79	34	1	19	44	1.62
5271447--5271510	23	2.8	23	82	0	83	37	6	20	35	1.78
5271447--5271519	23	3.2	23	78	7	76	35	5	20	38	1.76
5271873--5271933	20	2.9	21	85	9	79	36	4	21	37	1.75
5271027--5272174	423	2.7	424	95	2	2063	39	7	12	40	1.73
5272209--5272259	25	2.0	25	92	0	84	33	7	19	39	1.81
5272803--5272889	39	2.2	39	95	0	156	48	20	13	17	1.81
5280360--5280494	42	3.1	42	64	6	117	25	29	8	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5280328--5280503	87	2.0	87	100	0	352	27	28	7	35	1.85
5284350--5284386	12	3.1	12	96	0	65	21	24	37	16	1.93
5284388--5284481	42	2.3	41	89	7	145	50	0	0	50	1.00
5284388--5284493	42	2.9	36	77	18	96	48	0	0	51	1.00
5284535--5284604	36	1.9	36	82	5	88	24	28	7	40	1.81
5285643--5285703	29	2.1	29	81	6	70	45	0	3	50	1.17
5287205--5287356	64	2.4	64	78	9	168	28	18	19	34	1.95
5288381--5288411	2	15.5	2	100	0	62	51	0	0	48	1.00
5293304--5293434	9	13.4	10	82	12	53	60	0	1	38	1.06
5293297--5293330	10	3.2	10	84	15	50	41	0	2	55	1.15
5293328--5293433	3	36.0	3	90	7	173	65	0	0	33	1.00
5293568--5294188	113	5.5	113	92	2	987	28	19	14	37	1.91
5294615--5294669	22	2.5	22	87	0	83	38	12	12	36	1.82
5295034--5295184	50	2.9	53	75	9	148	25	20	15	38	1.92
5297285--5297375	45	2.0	45	100	0	182	31	19	17	30	1.95
5299468--5299505	10	3.8	10	100	0	76	7	0	0	92	0.40
5299806--5299860	2	27.5	2	100	0	110	50	0	0	49	1.00
5303353--5303497	72	2.0	72	95	0	263	24	25	15	35	1.94
5305089--5305129	20	2.0	21	85	4	57	53	2	2	41	1.27
5306031--5306106	30	2.7	27	75	15	73	0	23	10	65	1.23
5306544--5306596	3	17.7	3	96	0	97	64	0	1	33	1.05
5309220--5309636	206	2.0	206	99	0	818	41	16	14	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5311930--5311965	17	2.1	17	100	0	72	25	22	13	38	1.91
5318152--5318187	17	2.2	16	90	5	54	41	0	0	58	0.98
5318172--5318239	26	2.6	27	79	6	68	47	5	0	47	1.26
5319371--5319487	21	5.6	21	75	17	100	25	23	22	29	1.99
5319409--5319527	62	1.9	62	96	0	220	23	21	21	32	1.98
5319372--5319510	41	3.4	41	72	19	119	25	22	21	30	1.98
5319433--5319527	21	4.6	21	76	17	99	22	22	23	32	1.98
5323249--5323330	15	5.5	15	88	2	121	37	7	19	35	1.80
5323249--5323330	30	2.8	30	94	1	139	37	7	19	35	1.80
5323244--5323330	45	2.0	44	93	2	147	40	6	19	33	1.78

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49