genome.fa.s5530.2.7.7.80.10.50.1000.1.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: VEPZ01005530.1 Hibiscus syriacus cultivar Beakdansim tig00012787_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  255786

Tables:   1   2   

This is table  1  of  2  ( 133 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)
1591--1682	30	3.1	30	90	3	134	30	28	20	20	1.98
1674--1764	29	3.0	30	80	15	107	32	19	18	28	1.96
2579--2641	2	31.5	2	100	0	126	49	0	0	50	1.00
3108--3152	21	2.1	21	87	0	63	15	24	28	31	1.96
6373--6465	29	3.1	30	87	6	127	31	27	20	20	1.97
6453--6552	31	3.2	31	79	9	123	34	19	18	29	1.95
7856--7894	20	2.0	19	90	5	60	20	23	25	30	1.98
10876--10913	20	1.9	20	88	0	58	10	31	34	23	1.89
16912--16978	22	3.0	22	100	0	134	26	26	26	19	1.99
17198--17257	30	2.0	31	90	3	95	33	21	6	38	1.80
17614--17764	68	2.2	67	86	5	198	15	27	27	30	1.96
17744--17786	21	2.0	21	86	0	59	16	25	27	30	1.97
23822--23888	22	3.0	22	100	0	134	26	26	26	19	1.99
24108--24167	30	2.0	31	90	3	95	33	21	6	38	1.80
24657--24699	21	2.0	21	86	0	59	16	25	27	30	1.97
24528--24677	67	2.2	67	84	6	189	15	26	27	30	1.96
28377--28405	10	2.9	10	100	0	58	37	0	0	62	0.96
30841--30872	3	10.7	3	100	0	64	34	0	31	34	1.58
31517--31575	29	2.0	29	83	3	73	40	18	11	28	1.86
32720--32792	29	2.6	29	88	2	112	30	23	4	42	1.73
37071--37111	21	2.0	21	90	0	64	31	29	21	17	1.96
37135--37479	173	2.0	172	99	0	681	31	16	23	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39114--39158	23	2.0	23	81	0	54	22	24	26	26	2.00
42100--42143	21	2.1	21	86	0	61	31	27	25	15	1.96
42804--42838	18	1.9	18	88	11	54	54	5	17	22	1.64
43011--43108	20	4.8	20	77	3	88	36	23	18	21	1.95
42952--43108	41	3.9	41	70	11	126	38	25	17	18	1.93
43095--43268	20	8.6	20	79	5	118	34	25	20	20	1.96
43075--43269	40	4.9	39	80	3	183	35	24	20	19	1.95
43075--43268	60	3.2	60	83	0	244	35	24	20	19	1.95
43649--43719	33	2.2	33	94	0	124	11	23	16	47	1.79
43798--43901	19	5.6	19	74	15	92	43	21	23	12	1.86
43856--43917	14	4.1	14	73	18	52	45	22	22	9	1.81
43810--43928	33	3.4	33	86	6	148	44	22	21	10	1.83
43924--44005	19	4.7	19	75	20	88	10	20	23	45	1.83
43946--44027	31	2.5	33	92	3	141	9	23	21	45	1.81
45715--46182	93	5.1	93	98	1	888	22	12	19	46	1.83
46230--46358	19	7.3	19	74	17	107	45	27	17	8	1.78
46246--46358	19	6.5	19	74	19	120	46	28	17	7	1.74
46266--46358	33	2.8	32	91	4	150	46	27	18	7	1.76
46246--46358	52	2.2	51	81	9	131	46	28	17	7	1.74
46354--46487	19	7.6	19	73	18	119	11	19	23	45	1.82
46376--46432	14	3.7	14	77	20	60	10	21	22	45	1.82
46359--46487	33	3.8	33	87	5	168	10	18	24	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48403--48434	14	2.3	14	94	0	55	34	0	21	43	1.53
48540--48641	19	5.6	19	84	13	151	44	17	23	14	1.86
48648--49008	33	10.5	33	75	16	199	13	21	18	46	1.83
48670--49008	19	19.4	19	77	18	380	13	21	17	47	1.82
48648--49008	52	6.9	51	85	10	275	13	21	18	46	1.83
51486--51532	24	2.0	24	87	8	69	38	21	14	25	1.92
52213--52422	20	10.5	20	82	4	172	20	17	23	38	1.93
52213--52402	40	4.8	40	83	3	195	20	17	24	37	1.93
52369--52486	20	5.8	20	81	3	83	20	18	22	38	1.94
52354--52544	41	4.8	40	72	9	138	17	17	24	40	1.91
53774--53818	23	2.0	23	86	0	63	20	24	28	26	1.99
55725--55762	15	2.6	14	84	16	51	34	10	10	44	1.73
58306--58338	16	2.1	17	88	11	52	18	12	3	66	1.36
58519--58551	16	2.1	17	88	11	52	18	12	3	66	1.36
58275--58681	213	1.9	216	96	3	768	21	14	14	49	1.78
70446--70515	28	2.4	29	95	2	124	14	18	51	15	1.77
70446--70519	29	2.6	28	95	2	130	13	21	48	16	1.80
78459--78975	51	9.9	51	92	1	615	27	26	16	29	1.97
80113--80147	14	2.5	14	100	0	70	37	17	5	40	1.73
80247--80285	16	2.5	15	88	8	60	7	15	0	76	0.99
80249--80371	26	4.9	24	71	23	60	5	21	0	72	1.10
80239--80381	19	8.1	18	71	25	85	5	20	0	72	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
89845--89987	45	3.1	45	88	4	207	39	20	11	27	1.88
119769--120015	123	2.0	123	100	0	494	49	12	8	28	1.71
125334--125383	25	2.0	26	84	4	66	48	0	4	48	1.20
125631--125684	27	2.0	27	100	0	108	48	18	3	29	1.65
130231--130453	30	7.4	30	95	0	392	23	18	24	33	1.97
133855--133892	20	1.9	20	88	0	58	23	34	31	10	1.89
135012--135185	30	5.8	30	96	0	321	24	17	23	34	1.96
135976--136074	10	10.3	9	77	12	81	16	27	27	29	1.97
135977--136074	19	5.1	19	78	14	78	15	27	27	29	1.96
135975--136074	29	3.4	30	83	9	118	17	27	27	29	1.97
136071--136150	5	14.8	5	75	14	70	18	50	22	8	1.74
136071--136157	22	4.0	22	96	0	165	18	48	22	10	1.78
136147--136177	7	4.4	7	95	0	53	19	29	25	25	1.99
143323--143399	10	7.9	10	81	7	61	16	25	25	31	1.97
143344--143431	19	4.7	19	82	12	103	14	27	29	28	1.95
143324--143406	38	2.2	39	91	6	134	15	26	27	30	1.96
143354--143431	29	2.8	28	84	3	93	15	26	29	28	1.96
143324--143431	38	2.8	38	83	10	123	15	26	27	29	1.96
143324--143431	9	11.3	9	79	11	99	15	26	27	29	1.96
143428--143490	5	11.8	5	80	12	72	19	52	22	6	1.68
143450--143497	22	2.2	22	100	0	96	18	50	22	8	1.74
143428--143504	27	2.8	27	94	4	127	18	48	23	10	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
143427--143485	17	3.9	17	71	28	69	18	50	22	8	1.73
143487--143517	7	4.4	7	95	0	53	19	29	25	25	1.99
146026--146068	21	2.0	21	81	0	50	30	30	25	13	1.94
146607--146898	148	2.0	149	93	2	507	27	16	21	35	1.94
149627--149668	16	2.7	16	82	10	52	42	21	0	35	1.53
149850--149916	22	3.0	22	100	0	134	26	26	26	19	1.99
150610--150646	2	18.5	2	100	0	74	48	0	0	51	1.00
151579--151623	21	2.1	21	87	0	63	15	24	28	31	1.96
152901--152925	7	3.6	7	100	0	50	16	24	0	60	1.36
154673--154714	16	2.7	16	82	10	52	42	21	0	35	1.53
154896--154962	22	3.0	22	100	0	134	26	26	26	19	1.99
155662--155698	2	18.5	2	100	0	74	48	0	0	51	1.00
156621--156665	21	2.1	21	87	0	63	15	24	28	31	1.96
161620--161662	21	2.0	21	81	0	50	30	30	25	13	1.94
162202--162487	148	1.9	149	95	2	522	27	16	20	34	1.95
163320--163364	23	2.0	23	86	0	63	26	26	26	20	1.99
163332--163647	150	2.1	149	95	1	571	34	21	17	26	1.96
164690--164724	17	1.9	19	88	11	56	60	2	34	2	1.26
170191--170235	23	2.0	23	86	0	63	26	26	26	20	1.99
170203--170518	150	2.1	149	96	1	580	34	21	18	26	1.96
173554--173636	42	2.0	42	92	0	139	25	21	24	28	1.99
174459--174597	69	2.0	70	94	1	244	35	19	15	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
174856--174919	32	2.0	32	100	0	128	28	21	9	40	1.84
175135--175174	19	2.1	19	90	9	64	40	17	17	25	1.91
179667--179825	78	2.0	78	91	2	257	51	8	17	22	1.72
186013--186078	23	2.9	23	93	0	105	21	30	24	24	1.99
186408--186460	16	3.2	16	72	5	52	30	1	26	41	1.66
206933--207007	21	3.5	21	74	12	71	20	41	22	16	1.90
210581--210648	21	3.2	21	87	0	100	5	48	20	25	1.72
210583--210670	42	2.1	42	81	8	99	7	48	19	23	1.75
216550--216595	14	3.1	16	85	11	55	41	0	0	58	0.98
216542--216592	22	2.3	21	80	9	57	43	0	0	56	0.99

Tables:   1   2