genome.fa.s3620.2.7.7.80.10.50.1000.1.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: VEPZ01003620.1 Hibiscus syriacus cultivar Beakdansim tig00007658_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  323556

Tables:   1   2   

This is table  1  of  2  ( 159 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)
9521--9612	48	1.9	48	90	0	148	34	14	7	43	1.73
22461--22648	20	9.2	20	71	10	114	43	20	18	17	1.88
22537--22639	42	2.5	42	88	0	161	40	23	18	17	1.91
22748--22785	5	7.6	5	100	0	76	21	57	21	0	1.40
23277--23335	6	9.8	6	98	0	109	0	30	50	18	1.47
23431--23678	20	12.3	19	73	15	178	17	18	23	39	1.92
23431--23678	62	4.1	60	76	9	227	17	18	23	39	1.92
23438--23616	40	4.4	40	93	1	250	19	18	25	36	1.94
26129--26201	30	2.4	30	90	0	119	30	23	20	26	1.99
26175--26268	31	3.1	30	75	4	89	30	23	18	27	1.97
26184--26279	31	3.1	30	74	12	88	32	20	19	27	1.97
33017--33242	95	2.4	95	87	0	328	41	14	7	35	1.75
33180--33223	15	3.2	15	69	24	51	38	13	13	34	1.84
33155--33329	81	2.2	81	87	3	262	37	14	8	39	1.77
33239--33611	169	2.3	163	79	10	384	38	13	7	39	1.74
33471--33611	69	2.2	62	81	8	147	39	9	7	43	1.66
39794--39987	20	9.6	20	80	5	212	35	25	19	19	1.95
39733--39864	60	2.2	58	84	6	158	40	28	15	15	1.88
39794--39987	60	3.2	60	81	3	237	35	25	19	19	1.95
40368--40438	33	2.2	33	92	0	115	11	22	18	47	1.80
40517--40594	41	1.9	41	97	0	147	44	16	25	12	1.83
40518--40593	21	3.7	21	83	3	109	46	17	25	11	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40578--40634	14	3.7	14	75	20	60	42	22	24	10	1.85
40573--40637	33	2.0	33	100	0	130	43	21	24	10	1.84
40576--40650	33	2.3	33	92	0	123	45	24	21	9	1.81
40646--40743	19	5.7	19	68	22	81	10	22	22	44	1.82
40668--40757	14	5.7	14	69	23	63	8	23	23	44	1.81
40651--40765	33	3.5	33	95	0	212	9	22	20	46	1.79
42462--43116	93	7.1	93	99	0	1285	21	12	19	46	1.83
43164--43292	19	7.3	19	75	17	125	46	28	16	8	1.76
43200--43292	33	2.8	32	91	4	150	47	27	17	7	1.74
43164--43292	52	2.5	52	72	14	131	46	28	16	8	1.76
43288--43422	19	7.6	19	75	16	128	11	19	23	45	1.82
43310--43366	14	3.7	14	77	20	60	10	21	22	45	1.82
43293--43385	33	2.8	33	95	0	168	10	20	21	47	1.80
45342--45377	14	2.6	14	95	0	63	33	0	22	44	1.53
45484--45528	19	2.4	19	100	0	90	46	17	20	15	1.84
45553--45805	33	7.3	33	71	20	205	13	23	16	46	1.83
45553--45805	52	4.8	52	98	0	488	13	23	16	46	1.83
45575--45805	19	13.2	19	78	17	268	13	22	16	46	1.82
54317--54341	12	2.1	12	100	0	50	0	28	0	72	0.86
55243--55472	20	11.5	20	84	1	228	20	18	24	36	1.94
55459--55541	21	4.0	21	73	6	78	25	16	24	33	1.96
55439--55537	42	2.4	43	77	11	100	21	18	23	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63973--64316	172	2.0	172	98	1	672	34	24	12	28	1.92
72313--72346	2	17.0	2	100	0	68	50	0	0	50	1.00
79032--79093	31	2.0	31	100	0	124	38	19	19	22	1.93
83483--83529	18	2.6	18	83	6	60	48	0	2	48	1.13
96103--96148	24	1.9	24	86	8	67	21	19	26	32	1.97
96118--96189	36	2.0	36	83	5	92	20	22	27	29	1.99
96127--96199	36	2.0	36	84	5	94	23	20	26	30	1.99
96144--96253	54	2.0	54	87	3	159	20	20	30	29	1.98
96198--96539	36	9.5	36	87	1	425	20	18	28	33	1.96
99384--99417	13	2.6	13	90	0	50	58	2	0	38	1.13
101264--101322	22	2.9	20	76	11	66	54	1	0	44	1.10
101301--101376	33	2.3	33	88	11	111	48	0	1	50	1.09
102370--102467	37	2.6	37	85	0	124	40	13	14	31	1.84
102935--103022	19	4.6	19	70	20	67	35	3	1	60	1.21
103327--103360	4	8.2	4	93	6	59	23	2	0	73	0.97
103350--103408	15	3.8	16	79	16	54	13	8	0	77	0.97
103350--103401	13	3.8	13	80	12	52	13	7	0	78	0.94
103342--103401	25	2.4	24	81	8	66	15	6	0	78	0.95
103334--103409	8	10.4	7	75	16	50	15	6	0	77	0.96
107813--107886	10	7.4	9	78	15	67	79	4	16	0	0.87
107813--107886	21	3.7	19	79	15	78	79	4	16	0	0.87
107810--107873	9	6.9	9	78	15	60	78	3	18	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
108504--108580	22	3.5	22	92	0	127	37	27	15	19	1.92
109406--110886	106	14.0	106	89	2	2151	34	24	18	23	1.96
111618--111721	37	2.8	37	83	0	127	42	11	14	31	1.81
112187--112273	19	4.4	19	69	18	61	32	3	2	62	1.25
112420--112508	33	2.8	31	75	13	83	25	3	4	66	1.26
112481--112516	18	1.9	19	88	5	56	30	5	0	63	1.17
112505--112550	3	15.3	3	81	0	56	28	2	4	65	1.23
112545--112602	25	2.3	25	79	5	64	29	5	0	65	1.14
116644--116676	14	2.3	15	89	5	50	57	0	0	42	0.98
117142--117273	3	43.3	3	89	3	201	34	1	0	62	1.10
120893--120945	26	1.9	27	88	11	81	22	9	7	60	1.53
121063--121115	14	3.7	14	85	5	70	22	13	9	54	1.67
121154--121211	26	2.3	25	84	3	80	22	12	8	56	1.62
122844--122869	2	13.0	2	100	0	52	50	0	0	50	1.00
123165--123197	11	2.8	12	86	13	50	87	0	12	0	0.53
123161--123203	17	2.5	17	85	11	52	83	0	16	0	0.64
123172--123197	11	2.4	11	100	0	52	92	0	7	0	0.39
125321--125879	83	6.7	83	93	1	881	27	12	22	37	1.91
128270--128324	22	2.5	22	90	0	83	34	12	14	38	1.84
128811--129001	92	2.1	92	89	0	292	34	15	19	30	1.92
128965--129993	112	9.2	111	88	3	1289	37	13	19	29	1.90
129933--130050	59	2.0	57	88	3	173	33	16	19	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
129823--130127	169	1.8	169	95	1	558	34	16	19	30	1.93
129992--130199	110	1.9	113	89	5	334	37	14	20	27	1.91
130448--130573	3	41.3	3	88	3	189	34	1	0	62	1.10
138917--138967	26	2.0	26	96	0	93	15	19	19	45	1.86
140752--140815	33	1.9	33	87	0	92	48	10	15	25	1.77
148239--148272	16	2.1	16	100	0	68	0	44	8	47	1.34
149885--149928	23	1.9	23	90	0	70	29	22	18	29	1.97
150048--150090	20	2.2	20	100	0	86	69	0	6	23	1.12
151342--151367	5	5.2	5	100	0	52	61	0	0	38	0.96
152335--152424	30	3.2	29	74	18	100	45	0	1	53	1.07
152356--152414	16	3.8	16	74	17	52	44	0	0	55	0.99
152294--152434	54	2.6	54	84	2	187	44	2	1	51	1.22
163844--163875	16	2.0	16	93	0	55	53	25	9	12	1.68
167427--167509	29	2.8	29	88	1	121	43	10	13	32	1.78
171399--171488	30	2.9	30	75	9	92	35	10	12	42	1.76
171410--171488	30	2.6	31	79	4	97	36	8	11	43	1.72
176369--176397	12	2.3	13	94	5	51	68	0	0	31	0.89
176617--176668	27	2.0	26	81	11	61	63	1	9	25	1.35
178240--178543	152	2.0	152	98	0	590	26	14	25	34	1.94
178392--178702	170	1.8	170	98	0	604	25	16	25	33	1.96
179506--179538	11	3.1	11	86	4	50	0	6	3	90	0.52
179503--179646	76	1.9	74	83	5	182	11	16	9	61	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
186306--186385	39	2.1	39	88	4	117	21	21	27	30	1.98
189830--189858	12	2.3	13	94	5	51	68	0	0	31	0.89
198283--198324	22	1.9	22	85	0	57	61	0	4	33	1.17
198283--198332	22	2.2	21	82	10	55	56	0	4	40	1.18
199802--199883	3	27.7	3	82	7	105	63	2	0	34	1.08
200014--201563	76	20.4	76	96	1	2714	36	20	20	22	1.95
201566--201896	171	2.0	168	89	4	515	38	11	13	35	1.82
202411--202465	22	2.5	22	90	0	92	41	12	10	34	1.78
202816--203033	54	4.1	54	86	1	296	21	22	16	39	1.92
205038--205259	114	1.9	114	94	0	390	32	20	13	33	1.92

Tables:   1   2