genome.fa.s9343.2.7.7.80.10.50.1000.1.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: VEPZ01009343.1 Hibiscus syriacus cultivar Beakdansim tig00113123_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2141224

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  1  of  11  ( 1269 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)
1131--1197	19	3.5	19	83	4	89	37	23	23	14	1.93
1186--1242	14	3.9	14	79	20	71	47	26	17	8	1.77
1170--1246	31	2.4	32	93	4	129	45	24	19	10	1.81
1278--1333	14	3.7	14	78	17	67	10	16	23	50	1.76
1259--1349	32	2.8	33	96	3	175	13	18	20	47	1.82
1334--1377	20	2.2	20	88	4	63	18	25	20	36	1.95
1864--1908	18	2.5	18	88	0	72	13	15	44	26	1.83
2999--3040	19	2.2	20	91	4	68	52	19	19	9	1.72
3316--3358	21	2.0	21	95	0	77	18	16	44	20	1.87
3523--3637	20	5.7	20	78	5	88	23	17	22	36	1.95
3626--3718	20	4.5	21	78	4	100	17	24	18	39	1.91
3565--3699	41	3.3	41	82	4	139	19	21	20	38	1.94
3626--3718	41	2.3	41	100	0	186	17	24	18	39	1.91
4396--4550	20	7.8	20	73	14	90	32	27	16	23	1.95
4451--4564	41	2.8	39	77	12	106	33	23	16	26	1.96
4496--4599	20	5.2	20	75	15	108	39	22	18	20	1.92
4727--4777	22	2.3	22	93	0	84	21	41	13	23	1.89
6673--6720	21	2.3	21	92	0	78	16	16	29	37	1.91
7135--7210	21	3.7	21	72	10	75	25	36	17	21	1.94
7125--7219	21	4.6	21	68	12	70	26	34	14	24	1.94
8635--8674	14	2.9	14	80	0	53	30	0	17	52	1.45
8776--8813	20	1.9	20	88	0	58	47	26	13	13	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9028--9110	39	2.1	39	90	0	130	20	15	15	48	1.81
9416--9452	18	2.1	18	89	0	56	51	10	5	32	1.60
9839--9888	25	2.0	25	96	0	91	44	22	8	26	1.80
10046--10124	34	2.3	34	91	0	122	24	22	17	35	1.95
10402--10437	18	2.0	18	94	0	63	16	2	25	55	1.55
13566--13626	27	2.3	27	94	2	106	22	3	31	42	1.70
13652--13715	19	3.4	19	78	6	67	32	12	20	34	1.90
21235--21267	16	1.9	17	88	11	50	36	0	3	60	1.12
21227--21269	17	2.4	18	78	17	54	34	0	2	62	1.08
36921--36975	3	19.0	3	92	7	96	32	0	0	67	0.91
37497--37542	21	2.2	20	84	7	56	39	0	10	50	1.38
37504--37542	21	1.9	20	89	5	60	41	0	10	48	1.37
39267--39320	28	1.9	28	84	0	72	33	18	22	25	1.97
40526--40566	19	2.1	20	86	4	57	21	17	12	48	1.79
41249--41330	42	2.0	40	92	4	137	21	12	14	51	1.75
54543--54579	19	1.9	19	94	0	65	32	29	16	21	1.95
54624--54671	21	2.3	20	82	10	60	29	20	16	33	1.95
54665--54717	20	2.7	20	93	0	88	39	18	18	22	1.92
54706--54760	21	2.6	21	94	0	92	32	27	21	18	1.96
54748--54792	20	2.2	20	96	0	81	26	28	20	24	1.99
54955--55034	22	3.6	22	79	3	90	23	38	13	23	1.91
55433--55540	20	5.4	20	87	1	119	17	18	23	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55507--55550	20	2.2	20	91	0	70	11	13	20	54	1.69
57369--57430	31	2.0	31	87	9	90	22	8	17	51	1.71
57567--57669	20	5.4	20	75	13	101	33	24	19	22	1.97
57568--57711	54	2.7	54	92	2	236	36	22	19	21	1.95
57549--57708	20	8.6	20	66	20	78	38	23	18	20	1.94
57713--57749	19	1.9	19	88	0	56	5	13	27	54	1.61
57733--57813	33	2.4	34	83	2	110	16	19	22	41	1.89
57785--57838	20	2.7	20	97	0	99	27	20	22	29	1.98
58344--58449	21	5.0	22	72	9	94	21	38	16	22	1.93
58351--58462	42	2.7	42	82	0	125	23	37	17	21	1.94
59828--59892	30	2.2	30	100	0	130	27	3	13	55	1.53
60042--60246	20	10.9	20	76	12	173	21	19	22	36	1.95
60042--60246	94	2.2	94	80	6	229	21	19	22	36	1.95
60009--60246	34	6.5	34	75	12	143	21	18	22	37	1.94
60421--60455	18	1.9	18	94	0	61	17	2	25	54	1.57
62635--62688	24	2.2	24	93	0	90	40	20	18	20	1.91
63510--63616	20	5.3	20	80	6	126	23	18	27	30	1.98
63543--63658	21	5.6	21	79	8	105	20	19	25	33	1.97
63523--63658	41	3.3	41	78	12	154	21	19	26	32	1.97
63510--63637	61	2.1	61	91	0	202	22	18	26	32	1.97
63647--63699	20	2.7	20	93	0	88	20	18	18	41	1.91
64924--64986	31	2.0	31	93	0	108	26	31	20	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
68213--68797	292	2.0	292	98	0	1143	34	16	17	31	1.92
69557--69651	23	4.4	21	75	11	70	28	26	21	24	1.99
69557--69628	21	3.5	20	79	9	65	29	26	20	23	1.99
69556--69651	44	2.2	42	83	7	122	29	26	20	23	1.99
69575--69674	43	2.3	42	78	8	103	28	26	24	22	1.99
71159--71202	21	2.1	21	82	0	52	9	38	15	36	1.80
72257--72388	71	1.9	71	82	9	171	31	21	15	31	1.95
72294--72343	26	1.9	26	91	0	82	24	24	18	34	1.96
75126--75175	22	2.3	22	79	6	57	58	16	14	12	1.64
85330--85394	26	2.4	27	82	2	78	24	13	44	16	1.85
87670--88038	20	18.5	20	85	4	449	34	26	18	20	1.95
88712--88758	24	2.0	24	87	8	69	25	14	21	38	1.92
88933--88957	12	2.1	12	100	0	50	72	0	28	0	0.86
91262--91547	19	16.4	19	76	20	295	47	18	20	14	1.83
91262--91569	52	5.9	51	82	12	242	46	18	20	14	1.83
91262--91547	71	4.1	71	79	14	321	47	18	20	14	1.83
91262--91547	33	8.2	34	79	16	270	47	18	20	14	1.83
91576--91677	19	5.6	19	85	12	151	14	23	17	44	1.86
91790--91826	14	2.6	14	91	0	65	45	21	0	32	1.52
91821--91893	12	6.0	12	67	20	53	57	16	1	24	1.47
91807--91879	38	1.9	38	97	0	137	53	16	1	28	1.51
93753--93809	14	3.7	14	77	20	60	47	22	19	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93734--93826	33	2.8	33	91	0	159	48	21	19	10	1.79
93697--93831	19	7.6	19	76	16	119	46	23	18	11	1.81
93827--93955	19	7.3	18	71	17	94	10	17	26	45	1.80
93827--93918	33	2.8	33	90	3	141	9	19	25	45	1.81
93999--94470	93	5.1	93	99	0	930	46	19	12	22	1.83
96174--96263	14	5.7	14	74	23	81	42	23	25	8	1.83
96166--96280	33	3.5	33	95	0	212	45	20	24	9	1.81
96173--96285	19	6.8	18	72	23	88	43	22	24	9	1.83
96297--96351	14	3.6	14	73	21	56	9	27	23	40	1.85
96472--96542	33	2.2	33	92	0	115	47	18	22	11	1.80
96724--96778	22	2.5	22	81	0	74	20	16	40	23	1.91
96924--97117	20	9.6	20	82	5	221	19	19	25	35	1.95
96924--97117	60	3.2	60	83	0	253	19	19	25	35	1.95
97110--97186	21	3.7	20	70	13	57	27	16	23	32	1.96
97172--97223	20	2.6	20	96	0	95	21	13	26	38	1.90
97462--97494	14	2.3	15	94	5	59	54	6	3	36	1.41
98803--98851	3	15.7	3	87	8	71	65	0	0	34	0.93
98804--98889	35	2.5	36	83	9	99	72	3	0	24	1.01
98803--98881	19	4.2	19	78	15	83	69	2	0	27	1.01
98835--98889	27	2.1	27	86	3	76	76	5	0	18	0.97
99250--99829	123	4.7	123	93	1	995	24	20	16	38	1.92
99631--99689	19	3.0	20	65	30	54	18	20	11	49	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
99868--100056	36	5.2	36	66	5	110	39	13	18	28	1.88
99848--100068	73	3.0	72	87	2	325	39	11	18	30	1.86
99848--100025	36	4.9	36	66	4	115	37	11	19	31	1.88
100805--100859	22	2.5	22	96	0	101	38	12	16	32	1.86
102394--102460	35	1.9	35	82	11	84	31	23	11	32	1.91
106864--106947	43	1.9	44	82	2	107	32	22	11	33	1.91
109000--109034	18	1.9	18	88	11	54	71	0	0	28	0.86
109385--109449	23	2.9	24	80	17	61	60	4	4	30	1.37
110809--110859	25	2.1	25	88	3	77	70	1	1	25	1.08
112869--112908	20	2.1	19	86	13	55	17	2	7	72	1.19

Tables:   1   2   3   4   5   6   7   8   9   10   11