genome.fa.s8209.2.7.7.80.10.50.1000.1.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  1  of  30  ( 3569 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)
1712--1762	23	2.2	23	100	0	102	17	41	11	29	1.85
1903--1938	17	2.1	17	89	0	54	36	0	27	36	1.57
2142--2201	29	2.0	29	84	9	77	6	20	8	65	1.43
2225--2268	21	2.2	20	88	12	63	2	18	0	79	0.83
4895--4938	13	3.6	12	82	11	54	81	4	13	0	0.83
14134--14177	6	7.2	6	80	14	54	2	18	0	79	0.83
16161--16251	17	5.2	16	72	15	65	38	16	6	38	1.75
27005--27109	49	2.3	46	84	12	128	32	1	13	52	1.51
42474--42506	11	2.8	12	86	9	50	42	6	39	12	1.67
45934--45988	20	2.6	22	72	16	62	18	20	1	60	1.46
46595--46696	2	55.0	2	68	14	67	50	0	0	49	1.00
46606--46696	41	2.2	40	83	12	114	51	0	0	48	1.00
46808--46857	25	2.0	25	88	7	75	20	10	44	26	1.82
61313--61347	18	1.9	18	88	0	52	11	22	42	22	1.85
61313--61513	74	2.7	75	86	4	248	21	23	31	23	1.98
64116--64153	20	1.9	20	88	0	58	10	26	36	26	1.89
64136--64196	20	2.9	21	85	7	70	16	26	36	21	1.94
67980--68019	21	1.9	21	85	10	55	35	10	2	52	1.48
69939--70143	74	2.8	75	85	4	256	20	23	31	23	1.98
74083--74121	21	1.9	20	84	5	51	35	20	15	28	1.93
80833--80870	18	2.1	18	90	9	60	78	0	2	18	0.86
87320--87380	21	3.2	21	65	29	64	34	4	18	42	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
87312--87433	35	3.4	36	87	6	176	34	4	17	43	1.70
88358--88389	15	2.1	15	94	0	55	53	15	25	6	1.65
91659--91742	37	2.3	38	87	6	120	33	4	19	42	1.72
95349--95413	31	2.1	31	85	0	85	32	12	3	52	1.54
95575--95614	19	2.1	19	90	0	62	60	0	0	40	0.97
95591--95656	28	2.4	27	78	14	66	60	0	3	36	1.12
95599--95657	25	2.3	24	83	13	73	59	0	3	37	1.14
95538--95644	52	2.1	52	78	3	128	55	1	1	41	1.22
95617--95668	25	2.1	25	85	7	70	55	0	5	38	1.24
106643--106754	60	1.9	59	86	1	161	25	17	19	37	1.94
116502--116619	59	2.0	59	84	0	155	24	13	22	39	1.90
121694--121978	104	2.8	104	83	0	374	47	18	12	21	1.81
128832--128888	24	2.4	24	90	0	87	50	12	17	19	1.77
128857--129127	104	2.6	104	88	5	388	46	17	13	22	1.82
133879--133917	19	2.0	20	85	5	53	51	15	10	23	1.73
152256--152318	21	3.0	21	81	6	65	23	14	31	30	1.94
166482--166832	176	2.0	177	98	1	679	31	21	26	20	1.98
171906--171964	29	2.0	29	83	6	75	37	1	23	37	1.65
175195--175228	2	17.0	2	93	0	59	47	0	2	50	1.16
176405--176446	18	2.4	17	81	14	50	38	11	11	38	1.79
181808--182097	144	2.0	145	99	0	573	33	15	9	41	1.80
187807--187839	16	2.1	16	94	0	57	27	12	33	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
188018--188091	38	1.9	38	97	0	139	33	13	8	44	1.73
194479--194538	30	2.0	30	96	0	111	31	5	20	43	1.73
194721--194775	20	2.7	21	94	2	94	20	34	18	27	1.95
197327--197383	30	1.9	30	92	0	96	31	3	17	47	1.65
198068--198395	161	2.0	167	95	3	605	27	21	20	30	1.98
202430--202456	13	2.1	13	100	0	54	29	25	7	37	1.83
214235--214274	21	1.9	21	89	0	62	30	15	12	42	1.83
221846--221902	20	3.1	19	79	18	50	33	1	1	63	1.15
222256--222306	19	2.6	20	90	3	77	43	5	15	35	1.71
223215--223274	30	2.0	31	83	3	77	55	10	8	26	1.61
224905--224938	16	2.1	16	89	10	52	61	0	23	14	1.33
228651--228704	20	2.8	20	94	2	92	29	11	5	53	1.59
240919--240967	19	2.5	20	78	21	59	24	8	0	67	1.18
241216--241270	21	2.6	21	71	28	53	78	3	14	3	1.03
241214--241276	20	3.5	17	73	22	58	79	3	14	3	0.98
247141--247198	24	2.4	24	100	0	116	36	13	20	29	1.91
258842--258894	23	2.2	24	90	3	81	9	16	11	62	1.54
261192--261261	28	2.5	28	81	4	88	67	10	11	11	1.43
269399--269436	19	2.0	19	94	0	67	34	10	7	47	1.67
270598--270628	14	2.1	15	94	5	55	25	12	0	61	1.32
281894--281933	19	2.1	19	86	9	55	17	25	0	57	1.40
291330--291382	20	2.7	20	91	2	81	35	15	5	43	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
294694--294743	25	2.0	25	96	3	93	34	20	16	30	1.94
296627--296668	16	2.7	16	85	3	50	11	16	2	69	1.29
298763--298805	23	2.0	21	86	9	59	32	18	16	32	1.93
304705--304744	21	1.9	21	84	0	53	35	22	7	35	1.82
310885--310923	11	3.5	11	92	0	60	76	10	10	2	1.10
318955--319002	19	2.5	19	87	12	80	22	4	4	68	1.24
331658--331776	34	3.3	34	67	24	91	43	5	8	42	1.59
331682--331806	40	3.3	41	65	25	119	44	7	9	38	1.65
331654--331804	74	2.0	74	98	0	293	44	6	9	39	1.63
331977--332019	18	2.4	17	82	17	52	60	0	16	23	1.35
338499--338541	16	2.7	16	92	0	68	13	27	0	58	1.37
344022--344078	17	3.2	18	73	9	55	1	14	5	78	0.99
344022--344080	24	2.5	25	76	13	63	1	13	5	79	0.97
348274--348332	26	2.3	27	85	8	79	71	6	13	8	1.30
355005--355076	17	4.2	16	81	12	81	38	13	8	38	1.75
355475--355528	25	2.2	24	83	6	72	38	18	16	25	1.92
355481--355532	25	2.1	25	92	0	86	36	15	17	30	1.91
380488--380528	21	2.0	21	100	0	82	34	7	14	43	1.73
380526--380563	2	19.0	2	100	0	76	50	0	0	50	1.00
395082--395106	8	3.1	8	100	0	50	0	24	0	76	0.80
399266--399308	23	1.9	21	81	13	50	32	18	13	34	1.90
402958--403220	131	2.0	132	96	2	485	29	21	12	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
409788--409829	15	2.7	15	88	3	57	57	11	21	9	1.63
412025--412064	21	1.9	21	84	0	53	30	5	2	62	1.29
413639--413751	51	2.2	50	80	12	124	53	6	38	2	1.40
413725--413793	26	2.7	26	69	13	61	56	4	37	1	1.28
414303--414328	12	2.2	12	100	0	52	15	7	7	69	1.35
415817--415847	2	15.5	2	100	0	62	51	0	0	48	1.00
415897--416130	85	2.7	85	88	5	319	31	16	21	30	1.95
415908--416131	87	2.6	85	89	5	317	31	16	20	30	1.95
416054--416175	57	2.1	57	90	0	190	30	15	22	31	1.95
424278--424403	47	2.8	44	83	9	155	38	7	22	30	1.83
424766--424822	30	1.9	30	92	3	98	24	17	26	31	1.97
426365--426413	26	1.9	25	83	4	62	20	32	20	26	1.97
427203--427252	24	2.1	24	81	3	57	60	14	12	14	1.60
432715--432759	23	2.0	23	86	0	63	28	17	20	33	1.95
435122--435466	54	6.4	53	87	2	449	27	14	20	37	1.92
440264--440312	26	2.0	24	85	14	66	46	2	0	51	1.12
441511--441556	24	1.9	24	90	0	74	34	10	19	34	1.87
441919--442027	31	3.4	32	75	6	96	53	22	6	17	1.67
441980--442029	16	3.1	16	72	16	57	52	26	6	16	1.66
460657--460685	3	9.7	3	100	0	58	34	0	0	65	0.93
461463--461521	22	2.6	24	75	17	63	11	25	0	62	1.29
461974--462011	20	1.9	20	88	0	58	36	15	21	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462068--462111	20	2.2	20	83	0	52	34	22	13	29	1.93
469098--469134	2	18.5	2	100	0	74	51	0	0	48	1.00
471094--471140	19	2.4	20	96	3	87	53	10	4	31	1.55
471672--471709	19	2.0	20	89	5	60	39	15	2	42	1.61
475053--475115	3	20.7	3	74	18	51	61	0	3	34	1.12
475056--475122	12	5.5	12	77	19	50	62	0	2	34	1.10
475054--475123	17	4.1	17	79	15	65	64	0	2	32	1.08
475446--475962	111	4.7	111	92	2	783	28	20	14	37	1.91
475446--475962	218	2.3	218	90	3	784	28	20	14	37	1.91
475976--476282	76	4.0	76	96	0	569	34	21	19	24	1.96

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