genome.fa.s558.2.7.7.80.10.50.1000.1.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: VEPZ01000558.1 Hibiscus syriacus cultivar Beakdansim tig00001091_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  180436

Tables:   1   2   

This is table  1  of  2  ( 132 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)
1962--2001	20	2.0	20	85	9	55	47	0	0	52	1.00
2167--2199	11	2.9	12	86	13	52	21	0	0	78	0.75
14626--14743	62	1.9	62	85	0	164	25	22	11	41	1.86
16553--16611	27	2.2	27	93	0	100	37	1	5	55	1.32
16793--16855	26	2.4	27	73	10	67	49	0	1	49	1.10
31511--31562	21	2.5	22	75	9	63	38	15	0	46	1.46
31818--31882	31	2.1	31	91	0	103	20	12	13	53	1.71
35087--35347	135	1.9	135	88	1	389	31	26	16	26	1.97
37210--37293	42	2.0	42	100	0	168	40	7	35	16	1.76
38313--38352	2	20.0	2	94	0	71	50	2	0	47	1.14
43268--43341	29	2.5	30	82	10	82	43	1	1	54	1.17
45480--45511	14	2.1	16	88	11	50	34	15	0	50	1.45
47618--47663	23	2.0	23	87	8	67	73	2	10	13	1.17
48945--49059	60	1.9	60	82	3	142	31	13	17	37	1.89
49149--49191	23	2.0	21	81	9	50	30	4	11	53	1.57
57058--57101	14	3.1	14	86	0	61	50	22	0	27	1.50
59466--59548	21	4.1	20	78	7	87	19	37	27	15	1.92
60826--60873	19	2.5	20	82	3	62	52	6	12	29	1.63
62312--62352	19	2.0	21	86	9	59	19	39	24	17	1.92
63491--63563	11	6.5	11	73	9	58	31	19	23	26	1.98
63498--63564	23	3.0	23	88	2	100	32	19	22	25	1.97
63868--63932	31	2.2	31	83	5	80	40	4	6	49	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65263--65293	15	2.0	16	93	6	55	19	12	19	48	1.81
67632--67670	14	2.8	14	84	0	51	35	28	12	23	1.91
68086--68144	24	2.5	23	70	8	55	42	6	22	28	1.79
70548--70667	35	3.3	36	89	5	181	43	20	5	31	1.73
70599--70659	21	3.2	21	65	29	64	42	21	4	31	1.74
70550--70694	35	4.1	36	83	11	142	41	19	6	33	1.76
74732--74770	16	2.4	16	91	4	60	35	23	7	33	1.83
75170--75288	35	3.3	36	89	5	179	43	20	4	31	1.71
75221--75281	21	3.2	21	65	29	64	42	21	4	31	1.74
75172--75316	35	4.1	37	84	10	153	42	18	5	33	1.74
80721--80746	2	13.0	2	100	0	52	50	0	0	50	1.00
80716--80782	21	3.3	21	75	8	59	47	1	1	49	1.19
85610--85635	2	13.0	2	100	0	52	50	0	0	50	1.00
92791--92843	21	2.5	21	81	6	72	20	26	18	33	1.96
92833--92879	20	2.3	20	85	3	58	40	17	21	21	1.91
92870--93006	41	3.4	41	77	4	143	35	24	16	23	1.94
92873--92986	20	5.7	20	75	8	88	33	26	16	23	1.96
92915--92980	20	3.3	20	82	4	89	28	28	13	28	1.94
93173--93216	22	2.0	22	95	0	79	20	45	15	18	1.85
93464--93537	20	3.8	20	78	1	78	14	18	18	47	1.83
93674--93728	25	2.2	24	78	15	58	20	9	18	52	1.71
94857--94904	18	2.7	18	93	0	87	27	45	12	14	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
95445--95511	20	3.4	20	81	2	73	38	23	22	14	1.92
95484--95575	33	2.8	33	93	0	157	48	19	17	14	1.80
95494--95575	14	4.9	18	67	24	63	51	18	17	13	1.77
95592--95650	14	3.9	14	76	20	64	10	16	23	49	1.77
95587--95669	33	2.5	33	98	0	157	10	18	21	49	1.77
95570--95685	52	2.2	51	82	7	135	12	18	22	45	1.84
95608--95685	19	4.4	19	81	15	112	14	19	19	47	1.82
95650--95713	19	3.3	19	86	2	83	17	23	18	40	1.91
95733--95801	25	2.6	28	76	19	76	23	10	13	53	1.69
96076--96144	21	3.3	20	74	6	66	24	40	15	18	1.90
96066--96156	41	2.2	42	86	2	130	21	40	15	21	1.90
97979--98108	32	3.9	32	86	9	172	43	18	22	15	1.87
97979--98112	19	7.7	19	76	18	148	44	18	22	14	1.87
98123--98211	14	5.7	14	69	21	52	10	22	22	44	1.82
98118--98228	32	3.4	32	90	2	168	9	22	21	45	1.81
98334--98369	13	2.6	14	86	8	56	47	25	0	27	1.52
99434--99524	21	4.3	21	69	5	58	23	20	32	23	1.98
99452--99531	42	1.9	42	86	0	115	23	17	37	21	1.94
101583--101675	19	5.1	19	77	15	106	46	18	23	11	1.82
101608--101670	33	1.9	33	100	0	126	46	20	23	9	1.80
101671--101734	18	3.5	17	80	16	65	10	17	26	45	1.81
101682--101732	18	2.7	18	87	6	66	11	19	25	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
102255--102365	41	2.7	40	81	2	132	19	20	17	42	1.89
102237--102365	20	6.3	20	81	4	134	20	20	18	40	1.92
105101--105160	24	2.5	23	71	7	57	43	6	21	28	1.78
112565--112622	19	2.8	20	75	12	55	44	1	3	50	1.29
117451--117500	2	25.0	2	100	0	100	50	0	0	50	1.00
124635--124687	21	2.5	21	78	6	63	22	26	16	33	1.96
124662--124765	42	2.5	42	85	1	111	36	17	21	25	1.94
124677--124765	21	4.3	21	94	1	144	39	15	22	22	1.92
124759--124873	20	5.7	20	78	6	97	33	26	16	23	1.96
124756--124887	41	3.2	41	80	2	158	36	25	15	22	1.93
125060--125103	22	2.0	22	90	0	70	20	38	15	25	1.92
125382--125424	20	2.2	20	95	0	77	9	18	18	53	1.70
125561--125615	25	2.2	24	78	15	58	20	9	18	52	1.71
126367--126450	2	42.0	2	97	0	159	50	1	0	48	1.08
126723--126851	30	4.3	30	92	1	206	30	24	22	22	1.99
126720--126868	60	2.5	60	86	1	201	31	24	22	21	1.98
128050--128094	21	2.1	21	87	0	63	15	24	28	31	1.96
128220--128576	178	2.0	178	100	0	714	38	21	2	36	1.68
131053--131086	2	17.0	2	93	0	59	50	2	0	47	1.16
131356--131475	30	4.1	30	95	2	208	30	25	23	21	1.99
131773--131828	27	2.0	29	82	6	71	37	19	3	39	1.69
132081--132119	19	2.1	19	100	0	78	35	23	0	41	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
132085--132127	19	2.3	19	91	0	68	41	18	0	39	1.51
134239--134286	18	2.7	18	86	0	78	27	45	10	16	1.80
134827--134872	20	2.3	20	88	0	65	36	26	21	15	1.93
134884--134957	33	2.2	33	87	0	112	50	17	16	16	1.79
134974--135032	14	3.9	14	72	20	55	10	15	23	50	1.74
134969--135048	33	2.4	33	93	0	142	11	17	22	48	1.78
134990--135048	19	3.4	19	71	22	65	13	16	20	49	1.80
135033--135087	20	2.8	19	83	8	65	16	23	23	36	1.94
135442--135510	21	3.3	20	74	6	66	24	40	15	18	1.90
135432--135522	41	2.2	42	86	2	130	21	40	15	21	1.90
137385--137482	19	5.7	19	69	22	90	43	19	24	12	1.85
137385--137478	33	2.8	33	98	0	179	43	19	24	12	1.85
137478--137605	19	7.3	18	73	16	92	13	19	21	45	1.84
137488--137590	33	3.1	33	84	2	145	10	20	21	47	1.80
137712--137747	14	2.6	14	95	0	63	44	25	0	30	1.54
139096--139162	21	3.2	21	68	4	55	19	20	35	23	1.95
139535--139559	13	1.9	13	100	0	50	76	16	8	0	1.02
139436--139621	92	2.0	90	87	9	268	47	17	11	22	1.80
140963--141093	19	7.1	19	81	10	146	45	20	22	12	1.84
141089--141133	19	2.4	19	92	0	72	8	15	26	48	1.74
141688--141922	20	11.6	20	71	11	120	27	18	19	34	1.95
141685--141937	41	6.2	41	71	8	149	28	18	19	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
141797--141861	21	3.1	21	80	4	69	40	16	21	21	1.92
141912--141964	21	2.5	22	81	6	74	33	18	26	20	1.96
148631--148675	16	2.7	17	82	6	56	73	0	2	24	0.95
149368--149487	57	2.1	56	77	8	127	56	12	1	29	1.46
149420--149599	76	2.4	76	96	0	324	57	11	1	28	1.43
149500--149991	245	2.0	247	94	0	862	45	13	6	33	1.70
150266--150313	2	24.0	2	100	0	96	50	0	0	50	1.00
155611--155696	23	3.7	23	73	18	88	27	26	26	18	1.98
159476--159509	2	17.0	2	100	0	68	50	0	0	50	1.00
159920--160009	22	4.1	22	92	0	144	24	18	25	31	1.98

Tables:   1   2