genome.fa.s8342.2.7.7.80.10.50.1000.1.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: VEPZ01008342.1 Hibiscus syriacus cultivar Beakdansim tig00111069_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1228932

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 636 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)
76--296	114	1.9	116	87	9	328	32	21	13	32	1.92
2016--2055	20	2.0	20	85	9	55	57	7	5	30	1.48
4805--4838	15	2.2	16	89	5	52	29	0	17	52	1.45
6710--6775	33	2.0	32	85	2	87	37	12	9	40	1.74
9077--9132	29	2.0	28	86	6	78	50	7	26	16	1.70
9842--9867	5	5.2	5	100	0	52	19	0	0	80	0.71
30271--30324	27	2.0	27	92	0	90	50	12	1	35	1.52
30367--30418	27	1.9	27	84	0	68	38	7	11	42	1.70
35517--35577	23	2.7	23	94	2	106	16	4	21	57	1.58
44307--44340	2	17.0	2	93	0	50	0	5	50	44	1.26
45790--45845	24	2.3	24	96	0	103	58	5	25	10	1.52
61428--61487	28	2.1	28	100	0	120	21	33	21	23	1.97
63706--64058	148	2.4	150	86	2	469	36	9	16	36	1.82
70920--70998	9	8.9	9	72	18	58	75	3	3	16	1.09
70920--71012	36	2.6	35	86	8	116	76	5	3	15	1.10
73720--73761	19	2.2	19	100	0	84	26	9	28	35	1.88
75214--75253	19	2.1	19	95	0	71	25	5	37	32	1.77
81147--81178	2	16.0	2	100	0	64	0	0	50	50	1.00
84604--84694	39	2.3	40	90	1	139	29	27	5	37	1.79
85943--86129	81	2.3	81	94	1	320	19	12	26	41	1.86
86443--86572	42	3.1	42	90	0	206	35	26	24	13	1.93
104639--104707	30	2.3	31	82	14	90	36	18	14	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
114175--114212	20	1.9	19	89	5	58	21	26	7	44	1.79
115253--115290	17	2.2	18	85	4	51	52	0	5	42	1.24
116703--116778	39	1.9	39	97	0	143	38	5	21	35	1.76
117829--117950	60	2.1	59	84	4	156	30	19	18	31	1.96
136160--136185	4	6.5	4	100	0	52	76	0	0	23	0.78
136673--136726	24	2.3	23	90	3	81	33	7	9	50	1.62
144887--144982	43	2.2	43	90	1	147	16	5	29	48	1.68
149757--149812	24	2.3	24	100	0	112	37	16	17	28	1.91
150591--150657	11	6.4	11	73	15	52	52	1	1	44	1.19
150591--150691	31	3.2	31	74	13	100	48	6	1	42	1.41
150604--150657	21	2.6	22	82	8	69	50	1	0	48	1.11
151047--151122	24	3.2	24	79	3	73	61	9	5	23	1.46
154668--155466	403	2.0	405	92	2	1338	25	17	20	35	1.95
160510--160825	158	2.0	158	98	0	605	32	15	21	31	1.94
168262--168693	147	2.9	147	77	6	392	26	25	14	33	1.94
169558--169642	43	2.0	43	100	0	170	18	18	36	25	1.94
169618--169677	29	2.1	29	96	0	111	15	31	35	18	1.91
169984--170025	14	3.0	14	89	0	66	23	40	26	9	1.85
170012--170066	20	2.8	20	82	0	83	27	34	25	12	1.92
170053--170134	23	3.6	23	89	0	119	26	25	34	13	1.93
170153--170209	29	2.0	29	92	0	96	22	31	31	14	1.93
171649--171678	16	1.9	15	93	6	51	53	0	43	3	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
171646--171681	19	1.9	18	94	5	63	52	0	44	2	1.15
174125--174210	31	2.6	34	90	5	133	44	2	3	50	1.32
174358--174735	160	2.4	157	86	3	506	25	17	8	48	1.75
174403--174735	159	2.1	160	89	1	508	26	17	8	47	1.76
174403--174773	159	2.3	160	84	4	419	28	17	8	46	1.76
175021--175056	2	18.0	2	100	0	72	50	0	0	50	1.00
176072--176116	14	3.1	15	75	12	58	11	22	15	51	1.75
184149--184203	26	2.0	28	89	6	87	23	14	25	36	1.93
184269--184429	80	2.0	80	96	0	295	31	23	20	24	1.98
187087--187128	17	2.6	16	92	7	75	52	4	0	42	1.22
188919--189023	41	2.8	39	83	12	114	28	10	10	50	1.70
189180--189206	8	3.4	8	100	0	54	77	0	0	22	0.76
194643--194691	2	25.5	2	91	8	84	53	0	0	46	1.00
194996--195052	24	2.4	23	77	5	60	24	12	15	47	1.80
196766--196800	18	1.9	18	88	0	52	40	0	0	60	0.97
199398--199429	16	2.0	16	93	0	55	28	15	0	56	1.40
200919--200965	23	2.0	23	95	0	85	55	8	10	25	1.62
201910--201986	40	1.9	39	89	2	118	27	12	10	49	1.74
202676--202714	17	2.4	17	95	4	71	51	5	0	43	1.24
209740--210594	215	4.0	215	94	1	1446	47	17	9	25	1.78
209740--210594	431	2.0	432	93	2	1452	47	17	9	25	1.78
213921--214126	112	1.8	113	94	3	371	36	20	15	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
215891--215930	20	2.0	20	85	9	55	57	7	5	30	1.48
218708--218741	15	2.2	16	89	5	52	29	0	17	52	1.45
220608--220673	33	2.0	32	85	2	87	37	12	9	40	1.74
222981--223036	29	2.0	28	86	6	78	50	7	26	16	1.70
223747--223772	5	5.2	5	100	0	52	19	0	0	80	0.71
226454--226479	2	13.0	2	100	0	52	50	0	0	50	1.00
242192--242245	27	2.0	27	92	0	90	50	12	1	35	1.52
247172--247253	41	2.0	41	97	0	155	42	12	1	43	1.49
247496--247552	23	2.5	23	100	0	114	14	5	24	56	1.59
257930--258021	27	3.3	27	78	12	114	11	47	10	29	1.74
267669--267730	3	20.3	3	83	3	52	45	0	0	54	0.99
269124--269160	12	3.0	12	84	7	56	37	0	0	62	0.96
280525--280582	13	4.4	14	85	10	70	81	1	17	0	0.78
280536--280585	9	5.6	9	86	9	66	84	0	16	0	0.63
280536--280575	5	8.6	5	84	15	59	85	0	15	0	0.61
280518--280585	13	5.1	13	76	18	68	80	1	17	0	0.78
281731--282778	83	12.6	83	95	0	1809	26	13	22	37	1.92
283506--284178	113	6.0	113	93	1	1088	36	15	18	29	1.92
284103--284161	17	3.4	17	68	25	50	50	8	23	16	1.72
284408--284484	3	25.3	3	81	2	82	42	0	0	57	0.99
284408--284484	12	6.3	12	86	1	91	42	0	0	57	0.99
285571--285618	24	2.0	23	84	4	60	33	6	2	58	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
285866--285905	12	3.1	13	82	10	55	40	0	0	60	0.97
300840--300890	21	2.5	21	83	3	68	41	1	11	45	1.52
300840--300876	11	3.5	11	82	14	51	43	0	13	43	1.44
300914--300942	12	2.5	12	94	5	51	27	17	13	41	1.87
302834--302911	30	2.5	31	82	17	117	58	8	6	25	1.52
302952--303010	30	2.0	30	90	6	93	45	6	13	33	1.70
302990--303054	22	2.9	22	90	2	103	43	7	13	35	1.73
303816--304006	56	3.4	56	81	1	231	29	18	13	38	1.89
304367--304497	59	2.2	59	82	2	156	33	10	16	38	1.84
309761--309815	24	2.3	23	79	17	60	52	7	7	32	1.56
310288--310378	23	4.0	23	80	0	92	31	23	26	18	1.97
310454--310492	16	2.6	14	84	11	51	41	23	7	28	1.82
310450--310518	15	4.7	14	76	16	59	34	23	7	34	1.82
310455--310585	42	3.0	45	82	7	135	33	22	9	34	1.86
311168--311257	2	45.0	2	100	0	180	50	0	0	50	1.00
312002--312035	11	3.1	11	100	0	68	29	61	0	8	1.26
314227--314261	14	2.6	13	91	8	61	42	8	2	45	1.49
317144--317199	26	2.0	30	86	13	84	50	3	0	46	1.19
317089--317284	96	2.0	98	81	11	235	42	5	0	51	1.29
317192--317306	58	2.0	57	88	5	169	40	6	0	53	1.28
317192--317306	29	4.0	28	84	5	142	40	6	0	53	1.28
320802--320942	56	2.5	55	89	4	219	25	21	14	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
322255--322506	125	2.0	125	85	1	335	32	17	17	32	1.93
323477--323503	2	13.5	2	100	0	54	51	0	0	48	1.00
328646--328698	18	2.9	18	100	0	106	11	22	49	16	1.78
328657--328707	13	3.5	13	76	23	57	11	23	49	15	1.78
328657--328718	31	2.0	31	90	0	97	14	24	45	16	1.84
328710--328764	10	5.6	10	85	10	78	34	29	21	14	1.93
328710--328765	19	2.9	19	87	10	78	33	28	21	16	1.95
330186--330252	30	2.2	31	81	2	73	34	26	19	19	1.96
330211--330287	31	2.5	32	80	4	86	32	22	16	28	1.96
330276--330382	32	3.3	32	96	0	196	31	18	16	32	1.94

Tables:   1   2   3   4   5   6