genome.fa.s5083.2.7.7.80.10.50.1000.1.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: VEPZ01005083.1 Hibiscus syriacus cultivar Beakdansim tig00011417_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  344126

Tables:   1   2   

This is table  1  of  2  ( 185 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)
126--188	33	2.0	32	87	12	94	30	15	11	42	1.82
6646--6670	13	1.9	13	100	0	50	48	16	12	24	1.79
7624--7670	14	3.4	14	84	0	58	19	14	42	23	1.88
12889--12960	2	35.5	2	97	2	135	50	0	1	48	1.09
14271--14324	24	2.2	24	77	6	56	25	9	24	40	1.85
20372--20404	16	2.1	16	100	0	66	21	30	12	36	1.90
22239--22274	12	3.1	12	96	4	65	86	0	13	0	0.58
22239--22273	16	2.1	17	94	5	63	85	0	14	0	0.59
29983--30013	2	15.5	2	100	0	62	51	0	0	48	1.00
31948--31987	20	2.1	19	85	4	53	70	0	2	27	1.01
32948--32987	10	4.0	10	83	0	53	30	30	0	40	1.57
32952--32989	20	1.9	20	94	0	67	26	28	0	44	1.54
33007--33071	25	2.6	26	76	18	66	27	1	1	69	1.07
35095--35133	3	13.0	3	83	0	51	38	28	30	2	1.70
40689--40748	29	2.0	29	87	3	84	40	11	21	26	1.88
41954--41979	2	13.0	2	100	0	52	50	0	0	50	1.00
43644--43781	70	2.0	70	98	0	267	27	7	32	32	1.84
44716--45058	43	7.9	41	74	14	237	24	15	7	52	1.69
45031--45091	28	2.1	28	90	6	95	29	13	11	45	1.78
47155--47214	27	2.3	26	81	16	70	35	0	6	58	1.24
49877--49901	2	12.5	2	100	0	50	48	0	0	52	1.00
52107--52143	16	2.3	16	90	0	65	37	18	5	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55226--55503	35	7.4	36	80	13	228	40	9	5	44	1.60
55225--55498	39	7.3	38	80	11	237	41	9	5	43	1.60
55224--55457	77	3.1	74	82	8	238	41	9	5	43	1.61
63513--63563	24	2.1	24	92	0	84	17	25	7	49	1.74
67085--67182	42	2.3	42	100	0	196	35	33	15	15	1.89
68536--68696	85	1.9	85	87	5	236	32	18	19	29	1.95
68676--68719	13	3.4	13	87	0	61	34	18	15	31	1.92
69165--69194	11	2.9	10	90	9	51	80	0	20	0	0.72
73658--73688	16	1.9	16	93	0	53	74	6	3	16	1.16
73730--73838	38	2.8	38	77	9	114	44	9	2	43	1.50
73829--73862	2	17.0	2	100	0	68	50	0	0	50	1.00
73846--74046	39	5.3	37	83	9	237	43	7	5	43	1.57
73845--74077	75	3.1	74	80	13	244	42	9	5	42	1.59
74027--74120	35	2.7	34	77	14	102	35	9	5	50	1.58
75874--75933	16	4.0	16	70	16	56	56	5	5	33	1.42
75875--75940	28	2.3	29	89	5	107	59	3	4	33	1.33
75920--75957	19	2.0	19	90	10	60	68	0	0	31	0.90
81652--81689	20	1.9	20	88	0	58	28	13	26	31	1.93
84272--84312	22	1.9	22	90	5	66	58	9	0	31	1.31
84447--84600	30	5.4	28	70	11	82	53	9	16	19	1.70
86179--86235	3	19.0	3	82	7	71	61	3	0	35	1.13
86659--86767	28	3.8	28	74	12	80	47	16	12	22	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86876--86971	38	2.8	33	74	13	86	37	13	16	32	1.88
86974--87109	63	2.1	64	83	2	166	44	12	13	30	1.80
87768--87862	36	2.6	36	77	9	104	38	13	16	30	1.88
88108--88192	36	2.3	35	82	9	91	36	11	20	31	1.88
88253--88349	35	2.7	37	87	9	148	39	12	15	32	1.85
88995--89052	25	2.5	22	81	15	71	50	1	10	37	1.47
88985--89052	23	2.9	24	79	14	79	50	2	10	36	1.52
89921--90038	13	8.8	13	67	25	50	3	14	6	75	1.14
89960--90002	16	2.7	15	85	7	50	2	16	2	79	0.95
93944--94045	27	3.6	29	73	15	95	55	8	15	19	1.66
93944--94046	29	3.6	29	73	15	97	56	8	15	19	1.65
95674--95724	3	17.0	3	76	8	50	60	5	0	33	1.21
98544--98568	3	8.3	3	100	0	50	36	0	0	64	0.94
98957--99023	16	4.2	16	70	0	53	53	1	2	41	1.25
99032--99066	17	1.9	19	88	11	56	25	2	5	65	1.28
99523--99770	130	1.9	130	93	0	424	35	12	15	36	1.86
100161--100236	35	2.2	35	90	0	116	36	1	22	39	1.63
100459--100551	3	31.0	3	100	0	186	33	0	0	66	0.92
102841--102878	18	2.1	19	95	5	69	28	0	0	71	0.87
103475--103576	39	2.6	39	87	6	145	35	22	5	36	1.79
107953--108002	3	17.0	3	76	19	52	62	2	2	34	1.18
107953--108003	20	2.5	19	84	12	66	62	1	1	33	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
108220--108846	129	4.7	134	87	3	746	29	17	25	27	1.98
108629--108831	46	4.6	46	72	13	156	29	18	27	25	1.98
109900--109925	9	2.9	9	100	0	52	0	11	0	88	0.52
123204--123244	21	2.0	21	90	0	64	14	21	0	63	1.30
134408--134454	14	3.4	14	82	11	53	59	2	0	38	1.09
134413--134447	17	2.1	17	89	10	54	60	2	0	37	1.12
134656--135295	135	4.8	135	82	4	549	31	16	24	27	1.96
136355--136387	11	3.1	11	91	4	50	6	9	0	84	0.76
147155--147192	16	2.5	15	87	8	51	50	5	10	34	1.59
149664--149704	20	2.0	20	86	9	57	63	2	2	31	1.20
159501--159533	17	1.9	17	93	0	57	45	9	12	33	1.73
162295--162335	15	2.7	16	77	11	50	12	31	0	56	1.36
163380--163425	21	2.2	21	96	3	85	21	19	32	26	1.97
165673--165706	2	17.0	2	100	0	68	50	0	0	50	1.00
166134--166211	21	3.5	22	81	15	90	30	17	23	28	1.97
166112--166236	44	2.9	43	78	13	116	28	17	26	28	1.98
171980--172053	19	3.7	19	79	15	78	17	20	36	25	1.94
174769--174840	17	4.2	17	71	3	54	38	8	15	37	1.77
176027--176067	15	2.7	16	77	11	50	12	31	0	56	1.36
183735--183779	20	2.2	21	84	11	58	20	0	8	71	1.12
185399--185423	13	1.9	13	100	0	50	28	0	16	56	1.41
188401--188472	17	4.2	17	78	3	72	38	8	15	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
189902--189931	2	15.0	2	100	0	60	50	0	0	50	1.00
191377--191423	3	16.0	3	82	12	62	63	0	0	36	0.94
191354--191417	25	2.5	24	83	14	76	59	0	0	40	0.97
191379--191426	16	3.1	16	80	14	64	64	0	0	35	0.94
191377--191427	13	4.0	13	82	12	70	64	0	0	35	0.94
198461--198502	3	14.3	3	95	5	77	35	0	0	64	0.94
207054--207078	12	2.1	12	100	0	50	60	32	0	8	1.26
212633--212668	16	2.4	14	83	16	54	47	8	22	22	1.77
212638--212669	16	2.0	16	100	0	64	43	12	25	18	1.85
213220--213252	15	2.2	15	100	0	66	12	27	0	60	1.32
219641--219692	19	2.7	20	82	8	63	69	1	21	7	1.24
219628--219775	19	8.2	18	71	19	62	72	0	20	6	1.12
219733--219769	17	2.2	17	95	4	67	75	0	18	5	0.99
219660--219774	15	7.3	15	71	20	67	73	0	20	6	1.10
220948--221059	37	3.0	37	86	2	145	39	17	20	22	1.93
221061--221383	55	5.9	55	90	2	483	28	16	24	31	1.96
221069--221385	108	2.9	110	89	3	489	28	16	24	30	1.96
221061--221383	163	2.0	164	90	3	517	28	16	24	31	1.96
226898--226947	24	2.3	23	80	16	61	58	16	8	18	1.62
229871--229927	15	3.7	15	81	9	78	21	35	28	15	1.94
229871--229939	15	4.3	16	78	10	61	21	33	27	17	1.96
229871--229939	32	2.2	32	94	0	120	21	33	27	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
231169--231212	20	2.2	20	83	0	52	29	29	22	18	1.97
232049--232127	26	2.9	25	72	20	68	36	1	1	60	1.13
232054--232126	25	2.6	27	79	18	78	38	1	1	58	1.15
232161--232236	30	2.6	30	80	17	74	36	7	1	53	1.38
232259--232297	20	2.0	20	90	10	62	56	0	0	43	0.99
233531--234146	81	7.6	81	91	1	959	29	24	11	34	1.91
233531--234146	242	2.5	243	90	0	984	29	24	11	34	1.91
233531--234146	323	1.9	323	91	1	1011	29	24	11	34	1.91
234318--234513	55	3.6	54	85	1	248	31	19	13	35	1.90
234855--234906	19	2.5	21	84	9	63	28	21	17	32	1.96

Tables:   1   2