genome.fa.s9636.2.7.7.80.10.50.1000.1.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: VEPZ01009636.1 Hibiscus syriacus cultivar Beakdansim tig00117040_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  700957

Tables:   1   2   3   4   

This is table  1  of  4  ( 443 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)
4591--4627	2	19.5	2	89	10	60	54	0	0	45	1.00
4590--4627	15	2.5	15	100	0	76	55	0	0	44	0.99
4591--4627	11	3.2	12	88	11	60	54	0	0	45	1.00
7356--7395	20	1.9	22	85	10	57	75	0	12	12	1.06
7471--7517	20	2.4	19	79	10	58	36	0	6	57	1.24
8416--8528	35	3.2	34	88	5	163	42	23	0	33	1.60
9541--9648	35	3.1	35	85	2	137	36	0	20	42	1.59
34722--34770	24	1.9	27	88	12	77	42	0	2	55	1.11
36126--36164	20	1.9	20	84	5	51	17	2	12	66	1.35
46497--46690	99	2.0	96	88	7	284	40	19	27	12	1.87
54936--54981	21	2.2	21	84	0	56	39	0	0	60	0.97
55310--55366	23	2.7	21	83	8	62	24	31	31	12	1.92
55290--55392	33	3.1	33	87	1	134	23	30	35	10	1.89
55290--55377	10	8.1	10	70	16	59	23	31	34	10	1.88
55330--55400	33	2.2	33	86	0	97	25	28	38	8	1.85
55408--55463	29	1.9	29	96	0	103	19	30	37	12	1.89
55492--55516	12	2.1	12	100	0	50	16	36	8	40	1.77
55534--55590	29	2.0	29	96	0	105	19	29	35	15	1.93
56370--56421	19	2.7	19	87	3	68	19	25	28	26	1.98
56370--56419	10	5.1	10	74	13	50	20	22	30	28	1.98
56415--56472	17	3.4	17	97	0	107	17	43	24	15	1.87
56462--56491	7	4.4	7	91	8	53	16	30	30	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56462--56491	13	2.2	14	94	5	53	16	30	30	23	1.96
62965--63033	10	7.1	10	76	12	72	18	23	30	27	1.98
62965--63035	19	3.7	19	92	1	106	18	25	29	26	1.98
63029--63086	17	3.4	17	97	0	107	17	43	24	15	1.87
63076--63119	7	6.4	7	94	5	81	15	29	29	25	1.96
63076--63119	20	2.1	21	95	4	81	15	29	29	25	1.96
65603--65640	19	2.0	20	89	5	60	26	2	15	55	1.54
71966--72398	225	1.9	225	87	2	638	26	21	14	37	1.92
73468--73804	171	2.0	163	83	5	415	25	23	11	39	1.88
75150--75179	11	2.6	11	94	5	51	40	3	0	56	1.16
76525--76565	12	2.9	14	86	13	50	43	0	0	56	0.99
76519--76573	23	2.6	21	75	22	53	38	0	0	61	0.96
76519--76575	20	2.7	23	74	20	61	36	0	0	63	0.95
77635--77671	17	2.1	19	85	10	51	62	5	0	32	1.18
79349--79391	10	4.7	10	78	21	58	58	20	11	9	1.61
79353--79385	16	2.1	16	100	0	66	57	24	12	6	1.57
80366--80575	65	3.2	65	79	12	218	25	17	24	31	1.97
80996--81036	2	20.5	2	100	0	82	51	0	0	48	1.00
81586--81629	21	2.1	21	82	0	52	31	15	43	9	1.79
89029--89077	19	2.7	17	84	9	53	26	20	28	24	1.99
89049--89258	65	3.2	64	80	12	241	26	19	24	30	1.98
89911--89956	24	1.9	24	90	0	74	60	19	8	10	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
90700--90731	2	16.0	2	100	0	64	50	0	0	50	1.00
94210--94258	3	16.7	3	95	4	91	34	0	0	65	0.93
107161--107236	21	3.6	21	76	0	71	26	17	28	27	1.97
108475--108670	27	7.3	27	90	3	306	1	23	28	45	1.62
110740--110793	23	2.4	23	78	3	56	29	14	9	46	1.76
115204--115248	19	2.3	19	84	3	54	40	2	2	55	1.24
115832--115857	3	8.7	3	100	0	52	0	30	0	69	0.89
119116--119163	25	1.9	25	86	0	69	52	6	4	37	1.46
133572--133640	29	2.5	28	81	9	70	47	2	1	47	1.25
134308--134351	21	2.2	19	84	8	52	45	6	0	47	1.29
135596--135723	51	2.5	51	81	6	152	16	32	32	19	1.94
135735--135857	49	2.5	51	88	5	180	25	24	23	26	2.00
137620--137688	23	3.0	23	89	0	102	26	26	27	20	1.99
137704--138021	103	3.1	103	98	0	600	35	23	14	26	1.93
142754--142794	18	2.3	18	86	0	55	17	19	41	21	1.90
144312--144527	110	2.0	108	88	5	321	45	9	8	36	1.67
144651--144691	10	4.1	10	84	12	57	39	0	29	31	1.57
144771--144928	50	3.1	50	80	11	146	19	29	31	19	1.97
144802--144928	51	2.5	50	87	1	164	17	29	34	18	1.94
151260--151301	3	14.0	3	100	0	84	33	0	66	0	0.92
151300--151371	3	23.7	3	94	2	126	68	0	31	0	0.90
151568--151648	3	27.0	3	100	0	162	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
151300--151840	271	2.0	272	96	0	1003	40	4	21	32	1.74
155315--155364	25	2.0	26	84	4	66	72	8	6	14	1.27
160346--160415	36	2.0	36	86	8	99	67	1	1	30	1.08
160354--160389	14	2.6	14	81	0	54	69	0	0	30	0.89
160345--160433	34	2.6	32	80	13	97	67	1	2	29	1.10
160765--160844	33	2.4	33	89	4	117	33	13	12	40	1.83
160900--160950	13	3.8	13	79	20	61	68	0	0	31	0.90
160899--160946	22	2.2	20	85	10	60	68	0	0	31	0.90
161274--161426	83	1.8	83	83	5	202	23	19	25	31	1.98
161933--162186	110	2.4	107	88	2	375	22	18	24	35	1.96
165128--165158	15	2.0	16	93	6	55	77	0	3	19	0.90
166642--166689	3	16.3	3	80	20	57	68	0	0	31	0.90
166819--166864	18	2.6	18	83	13	51	47	0	0	52	1.00
168734--168799	19	3.3	19	65	19	53	54	15	12	18	1.71
168754--168819	21	3.2	21	64	12	55	50	16	15	18	1.79
168737--168819	41	2.0	41	97	0	157	50	16	13	19	1.77
171819--171855	1	37.0	1	100	0	74	0	0	100	0	0.00
172459--172496	2	19.0	2	100	0	76	50	0	0	50	1.00
178221--178284	32	2.0	32	100	0	128	21	18	28	31	1.97
183906--183991	28	3.0	29	80	13	90	32	5	0	61	1.20
183926--183991	28	2.3	29	92	5	109	30	4	0	65	1.13
183926--183998	29	2.6	29	86	6	105	31	4	0	64	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
184075--184137	29	2.3	28	89	10	96	46	0	0	53	1.00
184037--184261	66	3.5	64	74	11	208	45	1	0	52	1.12
184081--184243	32	5.1	32	70	22	135	43	0	0	56	0.99
184088--184150	29	2.2	29	88	5	94	46	0	0	53	1.00
184219--184265	15	3.3	15	79	11	62	48	2	0	48	1.13
184210--184254	23	2.0	23	86	0	63	44	0	0	55	0.99
184330--184398	31	2.2	32	94	2	122	46	0	0	53	1.00
184397--184426	15	1.9	16	93	6	53	46	0	3	50	1.18
184479--184544	28	2.3	28	87	10	98	65	1	4	28	1.21
190440--190491	24	2.2	24	82	0	59	11	15	25	48	1.78
190451--190498	10	4.4	10	78	19	51	10	12	22	54	1.68
190461--190491	14	2.2	14	94	0	53	6	12	25	54	1.62
190450--190511	24	2.6	24	87	5	90	12	12	19	54	1.70
191630--191703	16	4.6	16	94	0	121	12	12	18	56	1.66
209067--209104	18	2.1	18	100	0	76	21	28	5	44	1.73
219573--219648	36	2.1	36	97	0	143	31	10	14	43	1.79
220072--220101	15	2.0	15	100	0	60	13	26	46	13	1.80
224578--224653	36	2.1	36	97	0	143	31	10	14	43	1.79
227617--227724	37	2.9	37	93	2	173	40	13	10	35	1.79
228090--228213	42	2.9	41	78	9	124	27	3	3	66	1.23
228164--228214	24	2.1	24	85	7	68	25	0	0	74	0.82
228109--228220	43	2.6	46	81	13	132	27	2	1	67	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
228164--228272	10	10.4	10	69	26	57	21	3	0	74	1.03
228185--228315	62	2.1	64	81	14	150	17	7	1	73	1.14
228308--228357	26	1.9	26	87	0	73	20	6	2	72	1.16
233273--233483	116	1.8	116	87	2	316	33	21	19	25	1.97
233591--233921	36	9.1	36	77	14	333	27	19	12	41	1.87
233738--233921	37	4.8	39	83	7	193	23	20	14	42	1.88
233740--233892	78	1.9	80	88	2	229	23	19	15	41	1.89
233974--234092	34	3.4	36	93	5	208	42	16	9	31	1.80
234413--234462	20	2.5	20	93	3	84	36	30	6	28	1.81
234704--234779	37	2.1	37	89	0	116	40	15	13	30	1.86

Tables:   1   2   3   4