genome.fa.s6400.2.7.7.80.10.50.1000.1.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: VEPZ01006400.1 Hibiscus syriacus cultivar Beakdansim tig00015426_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1412076

Tables:   1   2   3   4   5   6   7   8   

This is table  1  of  8  ( 869 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)
311--359	24	2.0	23	81	14	55	12	10	14	63	1.53
282--359	28	2.9	27	75	16	72	11	11	14	62	1.54
13510--13650	64	2.2	63	84	5	176	36	18	18	26	1.94
15018--15467	147	3.0	148	93	0	742	27	15	21	36	1.93
18670--18793	64	1.9	63	85	6	169	37	16	18	27	1.92
20159--20608	149	3.0	148	93	1	733	27	14	21	36	1.92
20831--20879	21	2.4	21	79	3	55	53	2	16	28	1.54
29693--29735	20	2.1	21	87	8	63	18	13	0	67	1.23
29692--29741	20	2.5	20	75	15	59	18	18	0	64	1.30
37823--37872	18	2.6	19	81	6	57	34	14	26	26	1.94
40496--40520	10	2.5	10	100	0	50	44	20	0	36	1.52
41068--41099	11	2.9	11	90	0	55	15	9	25	50	1.74
42273--43311	84	12.6	83	78	5	932	23	19	24	32	1.98
42293--43311	164	6.2	163	81	4	1080	23	19	24	31	1.98
44414--44678	100	2.7	99	94	2	444	31	18	17	32	1.94
48103--48134	11	2.9	11	90	0	55	15	12	25	46	1.81
54573--54606	17	2.0	17	88	0	50	70	0	2	26	1.01
56200--56255	22	2.5	22	97	0	103	35	16	21	26	1.94
56799--56928	34	3.5	34	73	20	125	36	11	22	30	1.89
56663--57120	79	5.8	79	93	0	765	37	10	22	28	1.88
56830--57106	34	6.9	43	68	23	194	36	11	23	29	1.89
57544--57604	29	2.1	29	90	0	95	50	9	16	22	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59032--59102	18	3.8	18	74	7	70	26	32	18	22	1.97
61768--61914	4	36.8	4	98	0	285	25	0	48	25	1.51
64165--64220	22	2.5	22	100	0	112	33	16	23	26	1.95
64683--64973	34	7.6	34	67	26	147	37	10	22	28	1.88
64628--65086	79	5.8	79	91	0	704	38	10	23	28	1.88
64628--65072	237	1.9	237	94	0	784	37	10	23	28	1.88
69109--69199	24	3.8	24	80	2	121	39	18	14	27	1.89
70433--70474	21	2.0	21	95	0	75	26	28	21	23	1.99
72089--72136	19	2.5	20	82	3	62	29	12	6	52	1.63
73538--73578	21	2.0	21	90	9	66	17	29	36	17	1.92
76757--76808	20	2.5	21	81	15	63	7	32	0	59	1.26
84487--84541	21	2.6	21	94	0	101	41	12	14	30	1.83
86365--86424	31	1.9	31	89	0	93	18	18	38	25	1.93
87149--87179	16	1.9	16	100	0	62	19	0	16	64	1.29
92147--92202	7	8.0	7	100	0	112	42	42	0	14	1.45
93090--93170	35	2.3	36	89	6	121	43	23	1	32	1.62
93667--93957	146	2.0	146	91	2	469	49	9	5	35	1.59
95179--95224	21	2.1	21	88	4	65	34	0	0	65	0.93
95210--95242	16	2.1	16	88	11	50	42	0	3	54	1.15
95836--95872	16	2.2	18	85	9	51	67	0	13	18	1.23
96078--96197	51	2.4	51	85	0	159	20	24	31	23	1.98
99438--99498	13	5.1	13	75	15	60	70	9	0	19	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
99434--99501	34	2.0	34	94	5	120	67	13	0	19	1.22
101070--101102	16	2.1	16	100	0	66	57	24	12	6	1.57
101168--101242	10	7.7	10	69	21	52	54	21	13	10	1.68
101173--101236	16	4.0	16	91	0	110	56	21	12	9	1.64
102236--102283	10	4.4	10	78	19	51	54	22	12	10	1.68
102223--102277	24	2.3	25	87	9	87	60	16	10	12	1.60
102243--102273	14	2.2	14	94	0	53	54	22	12	9	1.67
102236--102284	24	2.0	24	96	0	89	53	22	14	10	1.71
102770--102805	18	1.9	19	88	5	56	66	8	0	25	1.19
104718--104744	12	2.2	12	100	0	54	29	14	14	40	1.86
113121--113168	16	3.1	15	77	19	53	45	0	20	33	1.52
119506--119572	3	22.3	3	82	11	84	64	0	0	35	0.94
119514--119568	20	2.8	20	83	10	76	65	0	0	34	0.93
120026--120126	39	2.6	39	95	3	177	17	22	8	50	1.74
119915--120239	152	2.2	153	87	5	466	24	20	13	41	1.88
120064--120574	113	4.5	113	96	1	920	25	19	15	38	1.92
120590--120744	76	2.0	76	94	0	274	34	21	20	23	1.97
120950--121228	37	7.6	37	77	3	222	36	13	20	28	1.91
120916--121090	73	2.4	73	94	1	296	34	14	19	30	1.92
121063--121125	22	3.2	22	62	29	59	25	20	26	26	1.99
120956--121188	111	2.1	110	90	2	369	33	15	22	29	1.94
121086--121230	73	2.0	74	91	1	238	37	12	20	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
121942--122018	22	3.5	22	92	0	136	38	11	12	36	1.80
122381--122531	54	2.8	54	96	0	284	21	19	17	41	1.90
124596--124815	114	1.9	114	92	0	368	31	19	14	35	1.92
127102--127166	1	65.0	1	75	0	58	0	7	4	87	0.66
127099--127180	9	8.6	10	75	10	73	0	12	3	84	0.75
127102--127180	6	13.3	6	76	20	69	0	11	3	84	0.74
127093--127180	19	4.6	19	79	9	90	0	13	3	82	0.78
127475--127508	2	17.0	2	100	0	68	50	0	0	50	1.00
129087--129156	27	2.6	27	75	11	72	60	7	10	22	1.53
129216--129254	8	5.1	8	81	12	55	61	10	15	12	1.56
129216--129254	15	2.6	15	91	0	60	61	10	15	12	1.56
132961--133023	3	20.7	3	84	9	83	65	0	0	34	0.93
132974--133031	18	3.1	20	76	16	70	68	0	0	31	0.89
139215--139311	43	2.4	38	72	14	88	39	20	16	23	1.92
153884--154083	98	2.1	97	83	2	249	29	9	20	40	1.84
157624--157698	35	2.1	35	85	4	98	44	21	0	34	1.53
157869--158156	143	2.0	145	91	3	463	36	6	9	47	1.62
158655--158735	35	2.3	36	89	6	121	33	1	23	41	1.62
164041--164117	37	2.1	37	85	4	102	48	1	3	46	1.28
170756--170799	23	1.9	23	81	9	54	11	18	11	59	1.61
171432--171491	3	19.3	3	83	13	77	63	0	1	35	1.05
171682--172281	133	4.5	131	80	5	580	24	18	31	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
171682--172266	264	2.2	267	82	5	700	24	18	31	25	1.97
172534--172593	31	2.0	30	90	3	93	41	13	11	33	1.80
172443--172593	29	4.9	31	70	15	98	42	15	13	29	1.84
172632--172943	36	8.9	36	73	12	184	37	11	17	33	1.86
173260--173326	22	2.9	23	75	16	66	50	4	10	34	1.57
174080--174197	2	59.0	2	100	0	236	50	50	0	0	1.00
178130--178166	17	2.1	18	85	14	51	70	0	0	29	0.88
185207--185281	35	2.1	35	90	0	114	33	28	28	10	1.90
185342--185449	24	4.5	24	83	2	92	41	19	12	25	1.87
185359--185449	47	1.9	48	88	2	139	38	19	15	26	1.92
187091--187248	21	7.8	20	70	7	77	39	25	16	18	1.91
187215--187408	20	9.6	20	81	5	221	35	25	19	19	1.95
187215--187408	60	3.2	60	83	0	253	35	25	19	19	1.95
187768--187838	33	2.2	33	89	0	106	11	23	16	47	1.79
187918--188023	21	5.6	20	70	16	91	45	18	25	10	1.81
187916--187994	21	3.8	21	79	12	92	45	16	26	11	1.81
187911--188027	41	3.1	38	79	14	136	46	17	26	10	1.80
187981--188034	14	3.5	14	73	22	54	42	24	25	7	1.80
187970--188039	33	2.1	33	97	0	131	47	20	25	7	1.75
187976--188050	33	2.3	33	92	0	123	46	24	22	6	1.75
188046--188143	19	5.7	19	70	22	81	10	24	22	42	1.84
188068--188157	14	5.7	14	74	23	81	8	25	23	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
188051--188165	33	3.5	33	95	0	212	9	24	20	45	1.81
189864--190244	93	4.1	93	98	0	744	22	12	18	45	1.83
190288--190386	19	5.4	19	77	12	91	45	26	18	10	1.80
190344--190399	14	3.6	14	76	21	58	46	25	19	8	1.79
190325--190399	33	2.3	33	97	0	141	46	24	20	9	1.79
190427--190525	19	5.4	19	76	12	100	11	18	25	45	1.82
190426--190488	33	1.9	33	96	0	117	11	20	22	46	1.82
192451--192486	14	2.6	14	95	0	63	33	0	22	44	1.53
192593--192690	19	5.4	19	82	13	134	45	17	21	15	1.84
192593--192712	53	2.3	53	97	1	224	45	17	22	15	1.85

Tables:   1   2   3   4   5   6   7   8