genome.fa.s2877.2.7.7.80.10.50.1000.1.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: VEPZ01002877.1 Hibiscus syriacus cultivar Beakdansim tig00005931_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  291049

Tables:   1   2   

This is table  1  of  2  ( 156 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)
13564--13620	20	2.8	20	100	0	114	54	5	10	29	1.56
14301--14364	21	2.9	22	88	9	78	40	0	1	57	1.08
14308--14364	21	2.6	22	91	8	82	42	0	1	56	1.10
14320--14364	21	2.1	21	100	0	90	42	0	0	57	0.98
14702--14797	48	2.0	48	87	0	138	39	9	12	38	1.75
20016--20059	19	2.3	19	85	14	56	40	0	6	52	1.28
20019--20118	46	2.2	47	82	10	118	45	1	6	48	1.34
20019--20118	23	4.5	22	76	10	96	45	1	6	48	1.34
20266--20417	2	77.0	2	73	13	93	44	1	4	48	1.34
20459--20530	29	2.6	27	72	23	69	34	1	2	61	1.19
20459--20534	27	2.8	27	78	7	75	34	1	2	61	1.18
21766--21806	20	2.1	20	86	4	57	48	4	0	46	1.23
32162--32223	32	2.0	31	87	9	92	40	0	3	56	1.15
40906--40948	16	2.9	15	89	6	61	39	27	9	23	1.85
44886--44958	37	2.0	37	83	5	94	49	1	4	45	1.29
45104--45154	20	2.5	20	96	0	93	19	21	11	47	1.81
45397--45449	25	2.1	25	100	0	106	41	0	7	50	1.30
45928--45952	5	5.0	5	100	0	50	40	0	0	60	0.97
46489--46519	14	2.2	14	100	0	62	45	0	12	41	1.42
46491--46524	14	2.6	13	90	9	52	41	0	14	44	1.45
46672--46702	14	2.2	14	100	0	62	45	0	12	41	1.42
46674--46707	14	2.6	13	90	9	52	41	0	14	44	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46840--46870	12	2.5	13	94	5	55	25	6	9	58	1.54
46886--46933	14	3.6	14	88	11	82	43	0	12	43	1.42
46889--46928	12	3.2	12	92	7	62	40	0	15	45	1.46
47176--47206	14	2.2	14	100	0	62	45	0	12	41	1.42
47178--47211	14	2.6	13	90	9	52	41	0	14	44	1.45
48509--48577	34	2.0	35	91	2	113	18	30	30	20	1.97
51913--51951	3	13.0	3	94	0	69	64	0	2	33	1.08
53168--53245	30	2.6	30	95	4	140	30	41	17	10	1.83
67180--67205	2	13.0	2	100	0	52	50	0	0	50	1.00
67999--68183	44	4.2	45	74	12	116	27	15	6	50	1.68
72738--72832	46	2.0	48	95	4	176	42	8	4	45	1.54
72850--72883	15	2.2	15	89	5	50	67	0	2	29	1.05
74207--74268	2	31.0	2	100	0	124	50	0	0	50	1.00
75846--75978	59	2.3	55	83	7	160	30	10	19	39	1.85
76905--76931	13	2.1	13	100	0	54	44	0	0	55	0.99
78454--78494	15	2.6	16	92	7	66	75	0	9	14	1.04
80150--80274	66	1.9	66	88	3	189	29	17	15	37	1.90
83442--83650	62	3.4	62	68	9	181	31	14	19	34	1.92
83459--83703	125	2.0	125	92	0	409	31	11	18	38	1.86
84591--84637	20	2.3	20	100	0	94	29	25	12	31	1.93
84625--84673	12	3.8	12	81	10	53	16	18	16	48	1.81
84626--84681	12	4.4	12	75	16	51	16	19	17	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92503--92549	22	2.1	23	84	4	60	40	25	10	23	1.87
99069--99096	2	14.0	2	100	0	56	50	0	0	50	1.00
99468--99500	16	2.1	16	100	0	66	57	24	12	6	1.57
99571--99635	16	4.1	16	89	0	103	56	20	12	10	1.65
99567--99641	10	7.7	10	69	21	52	56	20	12	12	1.67
100605--100655	24	2.1	24	85	7	68	56	17	11	13	1.66
100625--100694	14	5.3	14	86	13	94	51	24	14	10	1.72
100605--100694	38	2.4	38	90	3	137	54	21	13	11	1.69
100639--100693	24	2.3	24	93	0	92	52	25	12	9	1.68
102320--102371	17	3.0	17	78	18	54	42	3	0	53	1.19
102456--102509	21	2.4	23	81	12	67	37	1	1	59	1.19
102675--102714	17	2.3	18	86	4	55	47	2	0	50	1.14
103843--103920	22	3.4	22	76	18	61	28	0	5	66	1.12
104442--104521	2	45.0	2	70	22	54	56	0	0	43	0.99
104433--104515	34	2.5	33	94	3	141	56	0	0	43	0.99
104442--104525	19	4.6	19	76	15	97	55	0	0	44	0.99
105590--105615	11	2.4	11	100	0	52	38	0	0	61	0.96
105983--106029	21	2.2	21	88	3	67	53	0	6	40	1.27
109544--109593	21	2.4	21	100	0	100	30	26	24	20	1.98
113590--113626	2	19.0	2	94	5	67	48	0	0	51	1.00
117413--117481	35	1.9	37	88	5	106	46	4	0	49	1.21
119936--119967	3	10.7	3	100	0	64	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
121244--121306	3	20.7	3	81	15	76	68	0	3	28	1.05
121244--121303	25	2.4	26	84	15	83	68	0	3	28	1.05
121365--121443	32	2.5	32	85	2	97	50	3	2	43	1.33
121440--121686	36	6.8	35	76	12	180	42	7	4	44	1.53
121429--121672	37	6.7	35	69	22	116	43	7	4	45	1.52
121679--121725	4	12.0	4	88	4	60	74	4	0	21	0.99
121756--121791	19	2.0	18	89	10	56	2	22	11	63	1.39
122354--123223	84	10.5	83	83	5	1064	24	20	24	29	1.99
122332--123223	165	5.4	165	88	3	1227	25	20	24	29	1.99
126243--126288	19	2.4	19	92	0	74	71	8	8	10	1.30
128083--128111	3	9.7	3	100	0	58	68	0	0	31	0.89
129395--129457	3	21.7	3	81	15	71	69	0	3	26	1.03
129399--129460	10	6.5	10	83	5	76	69	0	3	27	1.04
129515--129605	31	2.9	31	74	4	85	48	3	3	45	1.35
129579--129841	37	7.1	36	75	11	203	42	6	4	46	1.50
129641--129844	73	2.8	72	83	8	234	43	5	4	46	1.48
130046--130103	29	2.0	29	100	0	116	55	6	6	31	1.53
130774--130885	35	3.2	34	86	7	145	41	20	0	36	1.59
131900--132011	35	3.2	34	86	7	154	33	0	23	41	1.60
133069--133144	35	2.2	35	95	0	134	40	23	0	35	1.55
133526--133767	126	1.9	128	90	3	391	36	14	12	36	1.84
134226--134262	15	2.4	16	86	13	51	59	5	2	32	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
136597--136647	12	3.9	13	78	17	52	56	1	1	39	1.22
137311--137461	60	2.5	60	80	1	160	33	16	4	45	1.68
137336--137495	60	2.7	59	80	2	158	33	17	5	43	1.71
148553--148653	53	1.9	53	87	4	150	23	8	25	41	1.83
151315--151375	23	2.7	23	100	0	122	31	27	13	27	1.94
151514--151557	19	2.3	19	84	0	61	50	18	9	22	1.75
152457--152538	40	2.0	41	85	2	112	31	12	9	46	1.74
153350--153424	29	2.6	29	84	0	96	18	40	26	14	1.90
153351--153438	29	3.0	29	84	0	95	20	37	30	11	1.88
153653--153737	29	2.9	29	83	0	107	12	29	40	17	1.87
161654--161678	6	4.2	6	100	0	50	52	0	16	32	1.44
173064--173093	2	15.0	2	100	0	60	50	0	0	50	1.00
173219--173412	36	5.4	35	79	12	98	46	4	8	40	1.54
173258--173414	36	4.3	36	80	12	151	45	4	7	42	1.52
173258--173547	38	7.6	38	75	15	217	44	4	9	42	1.57
173363--173454	45	2.1	45	87	4	134	47	3	5	43	1.42
173339--173499	39	3.9	45	74	15	152	44	3	9	42	1.54
173339--173499	84	1.9	82	88	5	243	44	3	9	42	1.54
179742--179831	34	2.6	34	77	8	103	46	3	8	41	1.51
179807--179889	37	2.3	37	85	8	118	46	8	7	37	1.62
181605--181650	20	2.3	20	96	0	83	28	26	10	34	1.90
182395--182476	2	41.0	2	100	0	164	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
186687--186769	37	2.3	37	85	8	118	46	8	7	37	1.62
188482--188527	20	2.3	20	96	0	83	28	26	10	34	1.90
193893--193920	10	2.8	10	100	0	56	0	0	17	82	0.68
204088--204155	30	2.2	31	86	2	93	26	27	4	41	1.75
206121--206257	43	3.1	42	82	8	150	31	20	23	24	1.98
206355--206391	19	2.0	19	89	5	58	56	16	0	27	1.40
208639--210621	4	499.8	4	88	1	2864	25	2	26	45	1.66
212492--212636	42	3.5	42	78	8	170	28	17	20	33	1.95
212492--212674	42	4.4	43	75	10	139	28	15	20	34	1.93
212492--212718	82	2.7	80	82	8	222	28	15	21	35	1.94

Tables:   1   2