genome.fa.s9214.2.7.7.80.10.50.1000.1.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: VEPZ01009214.1 Hibiscus syriacus cultivar Beakdansim tig00112801_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  549473

Tables:   1   2   3   

This is table  1  of  3  ( 353 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)
673--1139	227	2.0	234	81	6	547	26	20	17	35	1.95
1374--1398	2	12.5	2	100	0	50	52	0	0	48	1.00
2543--2609	3	22.0	3	80	11	66	4	31	1	62	1.24
2548--2620	37	2.0	37	86	5	103	6	30	6	56	1.52
3132--3228	16	6.1	16	83	0	77	29	7	20	42	1.79
3135--3234	24	4.2	24	86	0	119	28	6	22	44	1.76
3175--3234	4	15.0	4	100	0	120	25	0	25	50	1.50
8218--8277	21	2.8	20	85	12	68	55	3	0	41	1.16
13245--13283	2	19.5	2	100	0	78	48	0	0	51	1.00
16376--16401	12	2.2	12	100	0	52	42	7	11	38	1.70
18421--18469	10	4.9	10	82	0	53	26	28	0	44	1.54
18506--18539	9	3.9	9	84	7	52	35	0	2	61	1.11
18505--18543	17	2.4	17	95	4	71	33	0	5	61	1.18
19502--19556	3	18.3	3	100	0	110	34	0	0	65	0.93
37078--37125	24	2.0	24	100	0	96	50	4	8	37	1.52
54271--54322	23	2.4	22	78	9	63	38	7	0	53	1.30
57098--57161	31	2.1	31	91	5	103	29	10	9	50	1.69
62278--62323	18	2.6	17	80	10	56	32	6	2	58	1.36
64005--64037	17	1.9	17	93	0	57	27	18	24	30	1.98
65170--65294	31	4.0	31	96	2	225	38	24	19	18	1.93
66532--66694	65	2.5	64	84	3	220	28	15	25	30	1.96
66642--66692	19	2.7	19	91	8	79	27	15	33	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66536--66743	65	3.2	65	80	12	207	27	17	25	29	1.97
73697--73859	65	2.5	64	84	3	220	26	15	26	30	1.96
73807--73857	19	2.7	19	85	8	70	25	15	35	23	1.94
73701--73908	65	3.2	65	81	12	207	26	17	25	29	1.97
87971--88032	23	2.7	22	82	9	70	46	20	3	29	1.66
87990--88039	23	2.1	23	88	7	73	48	16	2	34	1.57
89165--89275	46	2.4	46	87	3	152	19	16	23	40	1.91
89634--89681	3	15.7	3	91	4	78	64	0	4	31	1.12
89771--89886	16	7.3	16	69	13	69	9	12	26	51	1.69
89807--89885	32	2.5	32	80	12	90	10	12	27	49	1.73
94560--94660	44	2.3	44	94	0	175	40	4	7	46	1.55
94606--95051	128	3.7	123	85	9	599	40	12	10	36	1.77
95073--95097	13	1.9	13	100	0	50	32	24	16	28	1.96
95109--95168	32	1.9	32	86	3	86	40	16	10	33	1.82
95462--95592	53	2.5	51	82	3	156	25	12	15	46	1.81
95463--95608	51	2.8	52	80	4	170	24	13	14	47	1.79
95652--95681	11	2.7	11	94	0	51	33	6	23	36	1.81
96678--96718	17	2.3	18	95	4	75	26	21	12	39	1.89
101326--101373	21	2.3	21	96	0	87	27	18	12	41	1.86
102236--102305	23	3.1	23	76	15	74	52	14	5	27	1.63
104218--104354	60	2.3	60	78	2	150	26	30	21	21	1.98
104485--104565	25	3.3	25	69	10	76	35	4	9	49	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104460--104615	49	3.2	49	85	5	201	37	5	9	47	1.60
104898--104971	25	3.0	24	71	11	69	40	5	9	44	1.60
107462--107513	21	2.5	21	81	3	61	38	19	25	17	1.93
107502--107616	20	5.7	19	78	11	104	33	24	18	24	1.97
107502--107616	41	2.8	40	83	6	133	33	24	18	24	1.97
107784--107827	22	2.0	22	90	0	70	20	43	15	20	1.88
108087--108145	20	3.0	20	87	0	73	16	18	22	42	1.89
108282--108336	25	2.2	24	78	15	58	20	9	18	52	1.71
109461--109505	18	2.5	18	88	0	72	26	44	15	13	1.83
109981--110033	20	2.7	20	81	0	70	39	24	20	15	1.91
110020--110106	32	2.7	33	87	7	133	50	21	13	13	1.77
110127--110184	14	3.9	14	79	16	71	10	17	24	48	1.78
110122--110200	32	2.4	33	95	2	142	11	18	22	46	1.81
110185--110240	20	2.8	19	84	7	67	16	23	23	37	1.93
112106--112141	14	2.6	14	90	0	54	30	0	22	47	1.52
112224--112262	20	2.0	20	94	0	69	46	30	10	12	1.75
112268--112332	19	3.7	19	84	15	95	46	18	21	13	1.84
112358--112427	20	3.5	20	96	1	124	15	22	27	34	1.95
113415--113468	24	2.2	24	86	0	72	20	16	22	40	1.91
113643--113667	12	2.1	12	100	0	50	72	0	28	0	0.86
115956--116014	19	3.4	19	73	22	74	45	18	22	13	1.84
115956--116082	33	3.8	33	84	4	184	44	18	22	14	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
115957--116083	66	1.9	66	95	0	227	43	19	22	14	1.87
116098--116154	14	3.7	14	75	20	60	8	24	22	43	1.81
116112--116172	19	3.5	19	72	21	69	11	22	21	44	1.84
116082--116172	33	2.7	33	94	1	155	10	24	19	45	1.83
116276--116302	14	1.9	14	100	0	54	37	25	0	37	1.57
117660--117865	42	4.9	41	72	9	155	22	17	36	23	1.95
117660--117726	21	3.2	21	68	4	55	19	20	35	23	1.95
117690--117865	84	2.1	84	96	0	325	22	17	37	22	1.94
118082--118268	91	2.0	90	91	6	304	47	19	12	21	1.82
119954--120046	19	5.1	19	75	15	97	45	19	23	11	1.83
119954--120046	33	2.6	36	78	15	120	45	19	23	11	1.83
120002--120055	14	3.5	14	73	22	54	44	22	24	9	1.81
119979--120060	33	2.5	33	93	0	137	41	21	25	10	1.86
120056--120100	19	2.4	19	84	0	63	6	15	26	51	1.68
120652--120785	20	6.7	20	86	5	153	24	18	25	31	1.98
120652--120806	81	1.9	81	82	2	195	23	20	24	32	1.98
126227--126252	2	13.0	2	100	0	52	50	0	0	50	1.00
127528--128000	55	8.7	55	81	6	424	30	24	17	26	1.97
127528--128000	110	4.4	110	83	5	540	30	24	17	26	1.97
127532--128000	165	2.9	162	82	5	526	30	24	17	27	1.97
128011--128081	36	1.9	37	88	8	110	23	22	18	35	1.96
129415--129456	14	2.8	15	85	7	50	9	14	0	76	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
129413--129541	9	14.7	9	70	22	71	10	15	0	74	1.07
129414--129541	15	7.9	15	69	21	57	10	15	0	74	1.07
129431--129457	14	1.9	14	100	0	54	11	7	0	81	0.87
129418--129503	42	2.1	40	80	10	93	8	19	0	72	1.10
129414--129542	8	15.9	8	72	20	83	10	16	0	73	1.09
129430--129540	44	2.5	44	75	16	104	10	14	0	74	1.06
146346--146401	18	3.1	17	73	17	51	57	0	0	42	0.99
149153--149198	16	2.8	16	86	3	65	19	15	23	41	1.89
150772--150841	23	3.1	23	80	15	83	52	15	5	25	1.65
158755--158791	19	2.0	20	89	10	60	43	0	8	48	1.32
161170--161201	2	16.5	2	93	6	57	50	0	0	50	1.00
171258--171305	18	2.7	18	80	9	62	41	0	4	54	1.20
172310--172353	17	2.6	17	77	0	52	59	0	0	40	0.98
172389--172431	16	2.6	17	77	3	52	58	0	0	41	0.98
184224--184265	20	2.1	20	100	0	84	35	11	14	38	1.83
184940--184989	24	2.1	24	100	0	100	36	20	22	22	1.96
185832--186676	453	1.9	450	85	2	1167	27	22	24	25	2.00
189117--189165	22	2.2	20	77	19	53	40	4	2	53	1.32
190440--190490	2	25.5	2	100	0	102	49	0	0	50	1.00
195381--195425	3	15.0	3	95	0	81	2	31	0	66	1.04
203492--203566	38	2.0	38	97	0	141	24	17	22	36	1.95
212331--212401	31	2.3	31	85	2	88	43	2	5	47	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
213866--213896	2	15.5	2	93	0	53	51	3	0	45	1.17
216228--216273	23	2.0	23	91	0	74	28	26	23	21	1.99
216251--216699	147	3.0	146	96	1	826	35	21	14	27	1.93
217227--217279	19	2.8	19	100	0	106	22	30	16	30	1.96
217227--217321	19	4.9	19	76	15	79	24	29	16	29	1.97
223090--223135	23	2.0	23	91	0	74	28	26	23	21	1.99
223113--223699	149	3.9	149	97	0	1093	36	20	14	28	1.92
224179--224337	63	2.5	63	84	2	194	27	21	18	32	1.97
225968--226034	24	2.8	24	83	0	89	22	28	22	26	1.99
236594--236733	70	2.0	70	100	0	280	50	20	12	17	1.78

Tables:   1   2   3