genome.fa.s7729.2.7.7.80.10.50.1000.1.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: VEPZ01007729.1 Hibiscus syriacus cultivar Beakdansim tig00109980_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1111098

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 752 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)
9135--9172	20	2.0	20	89	5	60	34	0	10	55	1.34
15780--15828	20	2.5	20	87	9	66	20	6	2	71	1.18
16631--16689	31	1.9	31	85	0	82	27	18	13	40	1.88
22903--22931	2	14.5	2	100	0	58	51	0	0	48	1.00
23295--23319	5	5.0	5	100	0	50	40	20	20	20	1.92
24255--24307	26	2.1	25	86	6	72	50	3	9	35	1.53
26845--27342	41	12.2	40	80	3	440	28	20	17	34	1.95
26845--27342	122	4.1	121	77	4	446	28	20	17	34	1.95
31283--31534	42	5.9	42	80	8	278	25	24	18	31	1.97
31283--31519	84	2.8	83	87	6	318	25	24	18	31	1.98
45141--45195	20	2.8	20	94	0	92	21	14	29	34	1.93
47014--47161	56	2.6	56	95	0	260	38	13	12	35	1.83
47676--47712	19	1.9	19	94	0	65	32	29	16	21	1.95
47777--47912	20	6.7	20	76	16	86	30	27	22	20	1.98
47777--47867	41	2.2	41	94	0	155	29	28	21	19	1.98
47738--47912	61	2.9	58	78	14	167	30	26	21	21	1.99
47798--47925	20	6.3	20	79	10	152	30	27	20	21	1.98
47798--47925	61	2.1	61	95	0	229	30	27	20	21	1.98
47736--47925	102	1.9	103	85	3	249	30	26	21	22	1.98
48746--48799	24	2.2	24	90	0	81	18	18	22	40	1.91
52068--52106	20	2.0	20	89	0	60	25	7	20	46	1.77
52267--52306	21	1.9	21	89	0	62	10	25	40	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56177--56233	21	2.7	21	97	0	105	33	8	3	54	1.48
58674--58710	14	2.6	14	91	4	56	51	21	18	8	1.72
60747--60781	18	1.9	18	94	0	61	54	25	2	17	1.57
61023--61100	34	2.3	34	95	0	138	39	21	20	17	1.92
60964--61256	74	4.0	74	75	10	258	37	21	19	21	1.95
60956--61253	20	15.9	20	74	12	193	36	21	19	22	1.95
61088--61296	93	2.2	93	78	9	219	36	19	20	23	1.95
61403--61498	30	3.2	30	100	0	192	54	13	3	29	1.54
62879--62986	21	5.1	21	74	4	92	25	19	34	20	1.96
62884--62986	42	2.5	42	75	3	109	25	20	33	21	1.97
63463--63506	20	2.2	20	95	0	79	52	20	11	15	1.74
63493--63561	20	3.5	20	87	0	93	34	23	18	23	1.96
63533--63613	33	2.4	33	87	2	108	41	23	18	16	1.89
63553--63632	33	2.4	33	80	0	88	46	26	17	10	1.79
63597--63643	19	2.5	19	89	0	67	48	27	12	10	1.74
63638--63809	20	9.2	20	71	14	89	21	21	20	36	1.96
63635--63809	74	2.4	74	82	3	244	22	21	20	35	1.96
66227--66306	22	3.6	22	76	3	90	20	13	41	25	1.88
66469--66574	20	5.2	20	79	6	124	23	20	26	29	1.99
66469--66584	61	1.9	61	92	0	196	23	20	25	30	1.99
66596--66636	19	2.2	19	95	0	73	29	19	12	39	1.88
66707--66757	19	2.6	19	78	3	57	27	11	29	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
68184--68239	18	3.1	18	86	0	76	28	19	26	25	1.99
70150--70206	20	2.8	20	72	17	55	38	0	0	61	0.96
70332--70399	19	3.6	18	74	18	59	47	1	1	50	1.19
70334--70412	22	3.8	20	70	20	54	48	1	1	49	1.17
70444--70534	28	3.0	31	76	10	91	48	1	1	49	1.15
70504--70553	22	2.3	22	79	6	57	48	0	2	50	1.12
71037--71116	42	2.0	40	85	5	106	26	2	6	65	1.29
71037--71120	40	2.1	40	82	8	100	27	2	5	64	1.29
71146--71178	15	2.2	15	89	10	50	12	9	21	57	1.62
74951--74982	14	2.3	14	94	0	55	53	0	0	46	1.00
78824--78865	2	21.0	2	100	0	84	50	0	0	50	1.00
79201--79608	55	7.4	55	89	2	538	27	22	14	34	1.94
79594--80279	54	12.6	54	89	4	1013	24	25	16	34	1.96
79594--80226	330	1.9	330	92	1	1063	23	25	16	34	1.95
82052--82283	124	1.9	125	87	2	342	23	25	16	34	1.95
83546--83621	22	3.4	22	73	20	59	6	21	0	72	1.07
83587--83622	5	6.8	5	87	12	54	0	19	0	80	0.71
83585--83629	17	2.6	17	86	13	65	0	20	0	80	0.72
83546--83631	17	5.1	17	68	24	56	5	22	0	72	1.06
83587--83631	22	2.0	22	91	8	74	0	22	0	77	0.76
83588--83651	17	4.1	15	75	18	51	3	25	0	71	1.00
86167--86210	21	2.1	21	95	0	79	15	18	18	47	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
89743--89768	2	13.0	2	100	0	52	50	0	0	50	1.00
95932--95992	22	2.8	22	89	0	86	26	24	16	32	1.96
96379--96424	22	2.1	22	95	0	83	36	15	21	26	1.93
96418--96471	21	2.6	21	93	0	90	25	16	22	35	1.95
97029--97143	18	5.9	18	78	15	122	29	30	20	20	1.97
97029--97148	40	3.0	40	96	0	213	30	29	20	20	1.98
97684--97755	20	3.6	20	94	0	126	25	22	19	33	1.97
101040--101064	11	2.3	11	100	0	50	8	32	0	60	1.26
101804--101842	18	2.2	17	90	4	60	30	0	0	69	0.89
101858--101922	25	2.6	24	76	9	76	35	7	0	56	1.28
104764--104828	21	3.2	20	78	12	62	78	1	3	16	0.96
104766--104828	25	2.4	26	79	15	67	79	1	3	15	0.94
104768--104828	17	3.5	17	75	20	54	78	1	3	16	0.96
104928--104997	30	2.3	30	80	4	79	62	2	10	24	1.40
104977--105001	13	1.9	13	100	0	50	64	0	12	24	1.27
105006--105036	16	1.9	16	93	0	53	80	0	12	6	0.89
105163--105199	2	18.5	2	100	0	74	48	0	0	51	1.00
107652--107897	39	6.8	36	70	17	118	36	15	18	30	1.91
107634--107852	101	2.1	104	88	3	327	36	14	19	30	1.91
107763--107899	39	3.6	38	87	3	177	37	16	18	28	1.92
107911--108038	36	3.5	36	69	6	105	36	14	18	29	1.91
107910--108066	72	2.1	74	85	9	207	38	15	17	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
109141--109389	94	2.7	90	84	11	306	31	17	19	32	1.95
113865--113896	2	16.0	2	93	0	55	50	3	0	46	1.17
115477--115543	20	3.6	19	76	21	54	76	1	8	13	1.09
115484--115536	20	2.6	20	80	16	56	77	1	7	13	1.06
115592--115647	25	2.3	23	82	14	60	71	1	12	14	1.23
115630--115699	30	2.3	30	80	4	79	64	1	10	24	1.33
115679--115703	13	1.9	13	100	0	50	64	0	12	24	1.27
115851--115890	2	20.0	2	94	0	71	47	0	2	50	1.14
118359--118384	2	13.0	2	100	0	52	50	0	0	50	1.00
119322--119394	21	3.7	21	78	8	73	1	49	6	42	1.38
119436--119486	21	2.4	21	96	0	93	3	37	17	41	1.68
124306--124338	2	17.0	2	93	6	59	51	0	0	48	1.00
146668--146723	25	2.1	27	87	9	80	16	8	17	57	1.64
147658--147737	35	2.4	34	83	8	101	37	0	1	61	1.04
147625--147732	35	3.1	33	80	11	94	34	0	3	62	1.13
147878--147931	17	3.2	17	72	0	54	31	0	3	64	1.11
149431--149478	21	2.3	21	85	0	60	25	39	12	22	1.89
149482--149575	21	4.5	21	89	7	122	18	34	26	21	1.96
150097--150192	33	2.9	33	81	7	113	55	4	3	37	1.35
150593--151221	128	4.9	128	95	0	1125	31	20	24	23	1.98
151292--151332	8	5.2	8	82	5	57	36	29	0	34	1.58
155835--155891	3	18.7	3	96	3	105	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
157302--157692	149	2.6	150	79	10	409	38	6	7	47	1.57
166670--166884	54	4.0	54	83	6	242	37	14	20	27	1.92
166670--166880	108	2.0	107	83	4	273	37	14	19	27	1.91
167240--167297	22	2.6	22	97	0	107	36	13	15	34	1.87
168003--168564	74	7.6	74	94	0	971	27	19	20	32	1.97
168904--168936	16	2.1	16	94	0	57	24	0	3	72	0.98
170207--170279	23	3.2	23	72	12	62	30	6	2	60	1.37
176374--176499	47	2.8	45	87	8	175	30	23	7	38	1.83
184683--184738	28	2.0	29	82	10	71	75	3	8	12	1.17
186448--186475	6	4.7	6	100	0	56	0	0	64	35	0.94

Tables:   1   2   3   4   5   6   7