genome.fa.s2648.2.7.7.80.10.50.1000.1.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: VEPZ01002648.1 Hibiscus syriacus cultivar Beakdansim tig00005411_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  636717

Tables:   1   2   3   4   

This is table  1  of  4  ( 408 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)
3947--3971	13	1.9	13	100	0	50	24	0	4	72	1.02
3944--3991	22	2.2	22	85	7	62	27	2	2	68	1.11
3981--4042	31	2.0	32	84	6	83	40	1	0	58	1.08
4086--4214	58	2.2	59	90	4	208	41	4	14	38	1.67
12411--12472	2	31.0	2	100	0	124	50	0	0	50	1.00
12816--12877	17	3.8	16	73	18	56	69	1	4	24	1.17
12828--12852	12	2.1	12	100	0	50	76	0	0	24	0.80
12816--12875	16	3.6	16	75	24	54	70	1	5	23	1.16
14339--14396	2	29.0	2	100	0	116	50	0	0	50	1.00
14387--14651	36	7.3	35	76	18	222	43	8	4	43	1.56
16666--16731	23	2.9	23	86	0	96	31	22	25	19	1.98
19594--19630	16	2.3	16	90	0	56	13	21	2	62	1.44
31203--31322	24	5.0	24	86	2	152	24	14	27	34	1.94
31205--31325	48	2.5	48	90	0	179	23	14	27	34	1.93
34005--34047	21	2.0	21	86	0	59	72	4	2	20	1.14
35102--35151	16	3.2	15	88	8	73	76	0	2	22	0.89
35107--35150	4	11.0	4	90	9	72	75	0	2	22	0.92
36455--36496	12	3.7	11	81	12	50	64	2	0	33	1.07
36603--36641	2	19.5	2	100	0	78	48	0	0	51	1.00
36649--36829	38	4.9	37	86	6	226	41	11	3	43	1.56
36649--36818	74	2.3	76	85	7	240	41	10	3	44	1.55
41165--41245	3	26.3	3	85	5	99	60	1	0	38	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41391--42693	76	17.2	77	94	2	2133	35	21	20	22	1.96
43366--43423	22	2.6	22	91	0	98	36	15	10	37	1.82
46074--46391	115	2.8	115	92	1	498	33	21	14	31	1.93
46302--46759	93	4.9	93	94	0	740	35	20	13	30	1.91
48904--48991	2	44.0	2	100	0	176	50	0	0	50	1.00
59188--59274	3	28.3	3	86	4	93	58	1	0	40	1.05
61537--61572	14	2.6	14	90	0	63	36	25	19	19	1.95
61604--61668	20	3.2	20	69	22	55	30	10	30	27	1.91
62132--62184	21	2.5	21	84	6	72	39	3	24	32	1.73
62319--62366	21	2.3	21	89	3	71	27	12	29	31	1.93
62335--62429	21	4.5	21	73	18	65	27	18	24	29	1.98
63706--63741	13	2.8	13	100	0	72	16	50	16	16	1.79
63739--63763	13	1.9	13	100	0	50	16	32	24	28	1.96
63719--63757	18	2.2	18	85	0	51	17	46	17	17	1.85
65091--65131	18	2.3	18	86	0	55	51	2	17	29	1.58
66269--66349	24	3.4	24	86	3	119	25	17	20	35	1.95
68457--68523	31	2.2	31	86	5	91	16	43	20	19	1.88
68475--68515	18	2.3	18	87	8	57	17	43	21	17	1.87
68510--68571	8	7.5	8	84	14	74	14	33	27	24	1.94
68513--68552	7	5.4	7	91	8	62	12	35	27	25	1.92
68513--68561	15	3.1	15	94	5	80	12	34	28	24	1.91
69863--69898	18	2.0	18	88	0	54	52	0	16	30	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70646--70677	13	2.5	13	89	0	55	75	15	9	0	1.05
73275--73301	9	3.0	9	100	0	54	22	11	11	55	1.66
79397--79459	11	5.9	11	71	14	51	36	0	3	60	1.13
79429--79471	14	3.3	14	81	18	56	32	0	6	60	1.23
82004--82096	46	2.0	46	93	4	161	41	12	12	32	1.81
84485--84539	2	28.0	2	96	3	103	49	0	0	50	1.00
87242--87277	18	2.0	18	100	0	72	38	5	33	22	1.77
88236--88281	24	1.9	24	82	8	58	34	13	2	50	1.53
88356--88413	30	1.9	30	85	0	80	53	3	3	39	1.35
88356--88420	30	2.1	29	83	8	76	53	3	3	40	1.32
88366--88507	8	19.6	7	69	22	55	52	0	9	37	1.38
88373--88508	14	9.2	15	68	20	83	52	0	9	38	1.34
88378--88508	22	5.8	23	78	12	123	51	0	9	38	1.35
88471--88528	28	2.1	28	83	6	73	55	1	5	37	1.33
88836--88876	11	3.7	11	90	0	64	17	31	17	34	1.93
91937--91971	18	1.9	18	88	0	52	54	0	17	28	1.43
93104--93219	24	4.8	24	85	6	146	24	17	17	41	1.90
98336--98379	18	2.4	18	80	0	52	61	4	0	34	1.16
103305--103396	6	15.5	6	90	3	125	30	54	15	0	1.41
103897--103921	6	4.2	6	100	0	50	0	16	48	36	1.46
104019--104112	21	4.5	21	71	12	77	25	23	21	29	1.99
105251--105288	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105364--105421	25	2.3	25	90	0	89	22	34	18	24	1.96
105957--106040	14	5.6	14	75	15	60	16	8	14	60	1.57
106113--106149	16	2.2	18	85	9	51	48	16	0	35	1.46
106198--106257	28	2.1	28	93	0	102	43	0	18	38	1.50
106342--106420	23	3.4	23	77	10	79	18	12	10	58	1.62
111358--111394	19	1.9	19	88	0	56	62	0	0	37	0.96
111355--111398	19	2.4	18	82	10	54	59	0	0	40	0.98
111924--111950	6	4.5	6	100	0	54	14	0	0	85	0.61
121430--121782	43	8.2	43	93	0	555	28	21	26	24	1.99
122452--122740	42	7.0	42	77	11	276	32	19	20	28	1.96
122475--122698	122	1.8	122	84	5	308	33	20	19	26	1.96
122399--122745	164	2.1	164	92	1	579	32	18	19	29	1.95
128858--128919	32	2.0	31	90	3	97	32	8	1	58	1.37
130628--130749	64	1.9	64	83	8	158	30	25	21	22	1.99
130800--130870	16	4.4	16	89	0	97	21	23	14	40	1.89
131116--131165	23	2.1	24	92	3	84	48	2	4	46	1.32
131225--131279	22	2.3	24	78	12	60	52	1	7	38	1.40
131612--131690	40	2.1	40	84	11	105	27	32	0	39	1.57
131633--131690	20	3.0	20	87	2	91	25	32	0	41	1.56
131633--131685	12	5.1	12	67	32	50	24	30	0	45	1.54
131632--131688	11	5.5	11	68	16	50	24	33	0	42	1.55
131758--131806	2	24.5	2	100	0	98	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
132250--132284	2	17.5	2	100	0	70	48	0	0	51	1.00
132396--132437	20	2.2	20	91	4	68	42	0	33	23	1.55
132352--132453	46	2.2	46	83	11	120	46	0	28	25	1.53
132405--132448	19	2.2	20	88	4	63	47	0	25	27	1.52
132666--132777	7	16.0	7	73	10	68	50	27	0	22	1.50
132667--132781	14	8.2	14	77	0	86	49	27	0	22	1.50
132666--132781	21	5.6	20	81	6	106	50	27	0	22	1.50
132666--132781	35	3.3	35	82	3	135	50	27	0	22	1.50
132799--132882	2	41.0	2	92	4	141	50	1	1	47	1.16
132788--132882	18	5.1	18	94	2	127	49	2	2	46	1.25
133029--133128	18	5.4	18	74	15	62	39	5	3	53	1.38
133044--133092	16	3.1	16	80	14	57	44	4	0	51	1.20
133095--133143	16	3.0	15	82	14	53	36	8	6	48	1.58
133125--133187	25	2.6	22	77	18	63	41	7	6	44	1.59
133172--133332	18	9.5	16	69	24	91	43	3	3	49	1.36
133174--133226	15	3.4	15	85	10	70	41	1	5	50	1.36
133136--133311	89	1.9	93	89	6	281	43	5	4	47	1.46
133253--133335	11	7.4	11	74	15	71	44	1	2	51	1.22
133184--133330	47	3.2	46	75	17	148	44	2	3	49	1.33
137911--137943	13	2.8	12	86	13	50	0	12	6	81	0.85
139307--139381	2	37.5	2	94	5	134	49	0	1	49	1.09
140550--140577	3	9.3	3	100	0	56	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
140928--142267	106	12.7	106	95	0	2267	23	17	25	33	1.96
145877--145938	2	31.0	2	93	6	108	50	0	1	48	1.10
147109--147142	3	11.3	3	100	0	68	67	0	0	32	0.91
148067--148111	2	24.0	2	86	13	69	51	0	0	48	1.00
155017--157032	106	19.3	106	93	2	3027	33	24	18	23	1.97
159154--159202	21	2.4	20	86	3	62	6	14	6	73	1.22
159167--159211	20	2.2	20	84	0	63	4	13	4	77	1.07
164558--164591	11	3.0	11	86	4	50	76	2	0	20	0.92
167263--167392	59	2.2	58	83	8	163	33	13	17	34	1.90
168076--168120	23	2.0	23	90	0	72	44	0	2	53	1.13

Tables:   1   2   3   4