genome.fa.s8160.2.7.7.80.10.50.1000.1.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: VEPZ01008160.1 Hibiscus syriacus cultivar Beakdansim tig00110729_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1466564

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 773 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)
1294--1356	21	2.9	21	83	4	72	15	25	38	20	1.92
5138--5177	21	1.9	21	85	10	55	35	10	2	52	1.48
7723--8024	101	2.9	106	81	11	370	24	18	23	33	1.97
10671--10704	16	2.2	15	89	5	50	67	5	20	5	1.33
12094--12145	9	5.2	10	80	11	54	69	0	1	28	0.99
12094--12164	21	3.4	21	81	11	67	66	1	1	30	1.09
12110--12152	18	2.4	18	81	11	52	67	2	0	30	1.03
13000--13041	19	2.2	18	84	16	50	42	0	0	57	0.99
14478--14572	27	3.4	28	76	13	88	51	1	0	47	1.07
14480--14560	30	2.8	27	80	12	81	48	1	0	50	1.08
15456--16159	351	2.0	351	97	0	1336	41	19	14	24	1.89
16147--16181	18	2.0	17	88	5	52	51	11	5	31	1.61
23600--23662	27	2.3	27	86	5	83	46	4	7	41	1.54
30311--30350	12	3.3	12	82	0	53	42	0	12	45	1.42
30839--30888	23	2.1	24	82	17	61	44	0	2	54	1.11
30972--31016	18	2.5	18	82	10	56	51	0	2	46	1.13
42260--42301	2	21.0	2	100	0	84	50	0	0	50	1.00
50207--50250	20	2.2	20	84	12	54	29	15	15	38	1.89
51862--51934	35	2.2	33	80	9	76	65	6	17	9	1.43
54067--54108	18	2.3	18	100	0	84	33	23	14	28	1.94
54061--54108	18	2.5	20	80	16	64	31	25	12	31	1.92
58446--58494	3	16.3	3	100	0	98	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)
59253--59303	2	25.5	2	100	0	102	50	0	0	49	1.00
59469--59553	24	3.6	23	79	3	80	43	17	9	29	1.80
59487--59570	24	3.5	24	83	3	80	40	17	13	28	1.87
59469--59561	48	1.9	48	82	4	116	41	19	9	29	1.83
59476--59581	48	2.2	47	80	6	115	42	18	10	28	1.83
61089--61119	13	2.4	13	94	0	53	19	16	45	19	1.86
63243--63355	48	2.4	48	85	5	140	44	17	11	26	1.83
63243--63355	24	4.7	24	81	8	115	44	17	11	26	1.83
63243--63374	48	2.8	48	82	7	119	46	16	11	25	1.81
64004--64030	12	2.2	12	100	0	54	33	14	7	44	1.73
65821--65862	18	2.3	18	91	0	66	11	19	47	21	1.81
65806--65837	13	2.5	13	94	0	55	12	18	50	18	1.78
67973--68085	48	2.4	48	87	3	156	43	17	13	25	1.86
67973--68051	24	3.3	24	85	0	104	43	18	10	27	1.83
67990--68077	24	3.7	24	80	3	106	42	17	15	25	1.88
69844--69869	12	2.2	12	100	0	52	50	0	15	34	1.45
73186--73223	19	2.0	20	94	5	69	28	15	26	28	1.96
73191--73349	63	2.5	62	85	4	201	32	19	21	27	1.97
74877--74921	23	2.0	23	90	0	72	22	26	26	24	2.00
80765--80879	31	3.7	31	83	2	158	56	14	8	20	1.64
80763--80882	63	1.9	62	96	1	222	55	15	9	20	1.66
93712--94271	182	3.1	183	87	3	799	43	12	15	28	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94171--94342	71	2.4	71	96	0	310	42	10	16	30	1.82
94867--94935	19	3.6	19	86	2	93	46	0	17	36	1.48
96193--96249	24	2.5	23	80	8	71	43	0	7	49	1.29
96927--96965	18	2.2	18	90	0	60	56	0	38	5	1.22
98604--98950	175	2.0	176	95	0	624	44	11	12	30	1.78
98980--100078	199	5.5	199	86	5	1407	42	14	14	27	1.86
98980--100085	397	2.8	397	86	5	1362	42	14	14	28	1.86
100438--100495	15	3.7	15	83	6	71	22	50	1	25	1.59
101643--101682	6	6.7	6	91	0	53	42	2	32	22	1.67
103148--103808	200	3.3	200	93	0	1124	42	18	14	24	1.88
103813--104607	201	4.0	200	90	2	1193	36	15	13	34	1.87
107273--107327	19	2.9	19	74	15	60	65	1	9	23	1.31
107445--107481	2	18.5	2	94	0	65	54	0	0	45	1.00
108199--108283	37	2.3	37	87	0	116	30	11	15	42	1.83
109044--110319	106	12.0	106	91	1	1925	22	18	25	34	1.96
111905--111951	23	2.2	20	85	11	58	2	10	8	78	1.04
111918--111977	16	3.9	14	83	16	59	1	11	6	80	0.98
111914--111961	19	2.3	20	86	10	62	2	10	6	81	0.95
111929--111977	19	2.6	19	83	3	55	0	12	6	81	0.86
116242--116297	20	2.9	19	75	19	62	66	1	8	23	1.30
116382--116525	21	6.6	21	66	27	61	64	2	4	29	1.23
116410--116447	13	3.0	13	85	14	53	71	0	0	28	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
116397--116451	23	2.3	23	85	14	69	72	0	1	25	0.94
116693--116726	18	1.9	17	88	5	50	73	2	0	23	0.97
116676--116738	26	2.4	27	77	22	71	68	4	1	25	1.18
116691--116757	33	2.1	32	83	8	82	70	2	0	26	1.02
117151--117243	37	2.5	37	85	0	114	30	12	13	43	1.82
117276--117715	199	2.2	201	94	0	785	36	15	13	33	1.87
117819--118059	128	1.9	124	82	7	299	41	12	17	28	1.86
131114--131146	2	16.5	2	100	0	66	51	0	0	48	1.00
145183--145305	4	30.8	4	88	0	57	33	0	16	49	1.51
145203--145329	4	32.8	4	86	6	172	29	0	20	50	1.49
154653--154739	5	15.4	5	73	21	66	9	22	50	17	1.74
154653--154739	22	4.4	18	84	14	86	9	22	50	17	1.74
154653--154739	40	2.2	38	88	12	122	9	22	50	17	1.74
154667--154739	23	3.2	23	96	3	139	8	21	52	17	1.71
154742--154796	10	5.6	10	77	10	60	36	29	18	16	1.92
161875--161955	13	6.2	13	74	23	57	12	23	46	17	1.81
161880--161956	17	4.4	18	95	4	140	10	23	49	16	1.77
161880--161956	35	2.2	35	100	0	154	10	23	49	16	1.77
162935--163185	31	8.0	31	77	11	219	31	18	19	30	1.96
162935--163124	95	2.0	95	91	4	312	31	18	19	30	1.96
162939--163186	63	4.0	63	85	6	292	31	18	19	30	1.96
164606--164676	35	2.0	35	97	0	133	23	32	8	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
170230--170296	28	2.3	29	87	7	93	35	5	0	58	1.23
170306--170388	30	2.7	30	79	1	112	37	8	2	51	1.45
170306--170422	61	1.9	61	82	3	146	36	6	5	51	1.51
171759--171943	75	2.5	73	86	7	248	22	20	27	29	1.99
172548--172590	21	2.2	18	88	12	59	62	25	0	11	1.29
180270--180444	54	3.2	54	85	3	228	26	20	21	31	1.98
189601--189678	38	2.2	36	84	9	97	34	8	0	56	1.31
190979--191009	2	15.5	2	93	0	53	51	0	0	48	1.00
191257--191301	22	2.0	22	100	0	90	64	8	0	26	1.23
192627--193121	130	3.8	132	81	9	545	23	15	26	33	1.95
192635--193123	261	1.9	259	82	7	623	23	15	26	33	1.95
201847--201871	12	2.1	12	100	0	50	84	0	0	16	0.63
202577--202616	2	20.0	2	100	0	80	50	0	0	50	1.00
203491--203534	22	2.0	23	90	4	72	25	36	13	25	1.92
204062--204091	3	10.0	3	92	0	51	63	0	3	33	1.11
206994--207023	15	1.9	16	93	6	53	46	13	0	40	1.43
208197--208247	15	3.4	15	71	10	50	39	9	1	49	1.47
208196--208257	30	2.1	30	96	0	115	41	9	4	43	1.59
210117--210150	12	2.8	12	86	0	50	55	2	5	35	1.39
218370--218467	39	2.5	38	80	9	99	47	1	1	50	1.14
218387--218458	25	2.9	24	82	12	76	48	0	1	50	1.09
219449--219737	48	6.0	48	93	1	443	18	15	41	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
220774--220816	21	2.0	21	86	8	61	41	0	0	58	0.98
221095--221698	255	2.4	249	87	8	839	26	12	20	40	1.88
222064--222110	17	2.8	17	86	0	76	27	27	12	31	1.93
226536--226574	13	2.9	13	85	7	51	33	0	2	64	1.08
227682--227744	32	2.0	32	87	3	92	26	26	14	31	1.95
228178--228218	15	2.6	16	92	7	75	14	26	31	26	1.95
230256--230465	65	3.2	64	79	8	210	26	18	24	30	1.98
233082--233133	20	2.6	20	90	0	86	23	25	25	26	2.00
233189--233241	20	2.7	20	96	0	97	22	16	26	33	1.96
240333--240386	19	2.7	20	88	8	83	70	0	0	29	0.88

Tables:   1   2   3   4   5   6   7