genome.fa.s8668.2.7.7.80.10.50.1000.1.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: VEPZ01008668.1 Hibiscus syriacus cultivar Beakdansim tig00111671_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2122653

Tables:   1   2   3   4   5   6   7   8   9   

This is table  1  of  9  ( 1078 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)
3517--3552	16	2.2	16	100	0	72	11	41	11	36	1.76
6255--6292	18	2.1	18	90	0	58	21	10	36	31	1.87
9666--9722	28	2.0	28	86	6	80	33	17	14	35	1.90
10177--10212	2	18.0	2	100	0	72	50	0	0	50	1.00
12737--12818	31	2.6	31	88	0	110	20	15	20	42	1.89
18871--18897	5	5.4	5	100	0	54	18	0	0	81	0.69
29244--29288	15	2.9	16	78	18	58	17	26	24	31	1.97
30028--30052	7	3.6	7	100	0	50	16	0	0	84	0.63
30063--30171	39	2.8	39	82	0	137	38	13	0	47	1.43
30335--30367	17	1.9	17	93	0	57	60	0	3	36	1.12
30363--30433	2	35.5	2	100	0	142	50	0	0	49	1.00
36462--36525	32	2.0	32	93	0	110	34	3	25	37	1.72
36523--36704	60	3.1	59	82	7	208	42	3	18	35	1.68
36523--36704	59	3.0	60	84	4	217	42	3	18	35	1.68
39245--39307	20	3.2	20	68	4	56	44	14	1	39	1.55
39252--39314	19	3.3	19	65	12	56	46	15	1	36	1.56
39245--39321	39	2.0	39	94	0	136	46	15	2	35	1.60
39385--39412	13	2.2	13	100	0	56	28	0	0	71	0.86
39385--39416	14	2.4	14	94	5	57	28	0	0	71	0.86
49496--49627	60	2.2	59	85	6	169	33	16	15	34	1.91
49774--49824	24	2.1	25	81	3	59	54	1	7	35	1.40
56436--56608	34	4.9	34	78	15	176	43	5	6	43	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56477--56501	12	2.1	12	100	0	50	44	8	8	40	1.63
56514--56538	11	2.3	11	100	0	50	40	8	8	44	1.63
56410--56676	108	2.4	110	80	12	302	44	5	7	43	1.54
56436--56625	71	2.7	74	84	9	231	42	5	7	44	1.56
56436--56655	71	3.1	70	79	12	175	44	5	7	43	1.55
56692--56727	3	11.7	3	94	5	63	30	0	0	69	0.89
58012--58068	25	2.3	25	81	6	71	26	5	0	68	1.11
58057--58121	8	8.0	8	75	14	53	21	4	0	73	1.00
63137--64119	166	6.0	165	89	3	1415	29	26	21	23	1.99
63146--64105	246	3.9	243	84	4	1118	29	26	21	22	1.99
64823--64995	34	4.9	34	78	15	176	43	5	6	43	1.55
64864--64888	12	2.1	12	100	0	50	44	8	8	40	1.63
64901--64925	11	2.3	11	100	0	50	40	8	8	44	1.63
64797--65063	108	2.4	110	80	12	302	44	5	7	43	1.54
64823--65012	71	2.7	74	84	9	231	42	5	7	44	1.56
64823--65042	71	3.1	70	79	12	175	44	5	7	43	1.55
65079--65108	3	9.7	3	92	7	51	30	0	0	70	0.88
66387--66460	26	2.8	25	73	15	69	25	5	0	68	1.10
67057--67250	36	5.5	37	68	14	126	47	11	12	28	1.76
67160--67281	31	3.7	31	70	18	104	51	11	11	25	1.71
66966--67299	68	5.0	68	84	6	468	48	10	12	28	1.74
70063--70790	242	3.0	242	99	0	1440	31	15	17	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
72346--72389	20	2.2	20	88	4	63	6	29	18	45	1.75
72369--72609	41	6.0	41	81	7	296	17	19	22	40	1.91
72372--72602	80	2.9	81	85	7	292	16	19	22	40	1.91
72510--72607	21	4.8	20	67	14	67	18	20	23	37	1.94
72370--72603	121	1.9	120	87	5	339	16	19	23	40	1.91
72689--72733	6	7.5	6	79	0	54	35	44	17	2	1.62
73315--73354	21	1.9	21	100	0	80	32	27	20	20	1.97
74138--74267	60	2.2	60	80	2	145	33	16	20	30	1.94
75398--75473	31	2.5	31	97	0	143	26	13	11	48	1.76
83118--83160	20	2.2	20	95	0	77	48	4	30	16	1.66
83225--83513	99	2.9	98	83	9	347	37	10	9	43	1.71
93553--93631	28	2.9	27	80	14	92	36	39	0	24	1.55
94520--94560	16	2.7	15	85	10	57	17	2	4	75	1.08
99725--99754	13	2.2	14	94	5	53	40	0	13	46	1.43
101530--101634	46	2.3	46	84	7	137	22	22	31	22	1.98
101547--101634	23	3.8	23	92	3	133	25	22	30	21	1.99
105345--105566	117	1.9	117	83	5	288	29	14	8	47	1.73
109045--109353	39	8.0	39	87	2	408	27	18	18	35	1.94
109380--109459	37	2.2	36	80	6	90	36	16	10	37	1.82
109623--109684	20	3.3	19	67	28	51	22	17	17	41	1.90
109536--109696	36	4.4	36	87	3	216	24	22	14	38	1.91
110037--110546	129	3.9	131	89	2	695	29	20	20	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
110128--110507	44	8.6	44	70	6	223	30	20	19	29	1.97
110468--110603	51	2.9	45	81	13	164	27	20	19	32	1.97
110501--110597	51	1.9	51	97	0	185	25	19	19	35	1.96
110367--110729	185	2.0	184	85	1	485	29	19	20	31	1.97
110554--111160	133	4.6	133	84	2	772	30	19	19	30	1.96
110557--111160	266	2.3	267	86	2	856	30	19	19	30	1.96
111457--111540	28	3.0	29	77	11	95	34	40	0	25	1.56
112257--112360	49	2.2	46	78	13	104	22	9	6	61	1.50
112405--112441	16	2.4	15	90	4	56	18	0	2	78	0.87
114097--114137	13	2.9	13	86	13	55	34	0	7	58	1.26
115310--115414	21	4.9	21	78	6	104	30	20	6	42	1.77
119158--119215	9	6.6	9	74	16	50	51	1	3	43	1.28
122028--122074	20	2.2	22	82	17	55	53	6	6	34	1.52
122956--123404	229	2.0	227	94	0	790	45	8	7	39	1.61
123637--123683	20	2.4	19	79	10	58	55	8	17	19	1.67
126003--126068	33	2.0	33	87	0	96	28	1	45	24	1.62
128265--128327	23	2.7	23	90	0	90	36	6	19	38	1.77
128265--128337	23	3.2	23	86	3	85	35	5	19	39	1.75
138453--138500	23	2.1	23	88	0	69	35	12	18	33	1.89
139340--139402	23	2.7	23	92	0	99	38	20	4	36	1.74
142245--143177	183	5.1	183	96	1	1683	32	16	14	35	1.90
144313--144365	24	2.2	24	83	6	63	26	7	13	52	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
144505--144547	20	2.3	18	88	11	61	20	18	11	48	1.79
144533--144870	161	2.1	162	90	0	525	28	16	14	40	1.87
144996--145491	230	2.2	229	96	0	922	39	7	7	44	1.63
147808--147842	18	1.9	18	88	11	54	82	2	0	14	0.77
147783--147836	24	2.2	24	80	0	63	75	0	5	18	0.98
148208--148287	34	2.3	33	81	12	90	30	0	5	65	1.14
148241--148315	32	2.4	32	84	2	98	36	0	1	62	1.04
148767--149038	126	2.2	126	99	0	535	32	19	25	23	1.97
149106--149146	8	5.2	8	82	5	57	36	29	0	34	1.58
152140--152177	13	3.0	13	88	3	60	44	0	0	55	0.99
154124--154179	19	2.8	19	81	5	67	64	1	0	33	1.04
154135--154177	3	14.3	3	80	9	52	65	2	0	32	1.06
154124--154177	16	3.4	16	82	7	58	66	1	0	31	1.02
155638--155764	47	2.8	47	92	3	206	30	22	7	38	1.83
163000--163070	35	2.0	35	89	5	108	52	12	8	26	1.68
163649--163688	12	3.6	12	80	12	50	45	2	0	52	1.14
163675--163973	22	13.6	22	86	4	424	40	0	10	48	1.41
163998--164056	31	1.9	31	89	0	91	44	8	3	44	1.51
165004--165281	93	3.0	93	86	2	342	37	8	9	43	1.69
166110--166136	2	13.5	2	100	0	54	48	0	0	51	1.00
166065--166159	48	2.0	48	95	0	172	50	2	10	36	1.49
167000--167052	25	2.0	27	85	7	74	39	0	1	58	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
167010--167061	25	2.0	26	82	10	63	44	0	1	53	1.11
179541--179567	2	13.5	2	100	0	54	48	0	0	51	1.00
180102--180132	16	1.9	16	93	0	53	32	12	6	48	1.67
181655--181686	15	2.1	16	88	11	50	28	3	6	62	1.34
181831--181888	21	2.8	21	83	0	80	29	18	3	48	1.65
183497--183572	29	2.6	30	89	2	109	30	3	17	48	1.65
184605--184657	25	2.1	25	89	0	79	28	7	15	49	1.71
190825--190899	29	2.6	29	89	0	105	32	2	16	49	1.59
193780--193819	8	4.6	8	82	17	53	50	0	0	50	1.00
193770--193816	10	5.0	9	80	15	51	46	2	0	51	1.13

Tables:   1   2   3   4   5   6   7   8   9