genome.fa.s398.2.7.7.80.10.50.1000.1.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: VEPZ01000398.1 Hibiscus syriacus cultivar Beakdansim tig00000731_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  357049

Tables:   1   2   3   

This is table  1  of  3  ( 301 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)
201--490	131	2.2	131	86	3	406	34	19	15	30	1.93
2674--2993	5	64.6	5	79	16	300	42	0	0	56	1.06
2691--3032	2	191.5	2	72	22	264	42	0	0	56	1.08
13414--13512	42	2.3	43	76	8	105	31	19	15	34	1.92
13633--13924	36	7.7	36	79	10	239	30	14	8	46	1.73
13633--13923	72	3.8	73	79	11	264	30	13	8	47	1.73
14363--14406	22	2.0	22	86	0	61	31	6	31	29	1.84
14573--14677	53	2.0	52	94	1	183	46	25	6	20	1.75
19448--19521	37	2.0	37	81	0	85	25	8	16	50	1.72
19485--19529	21	2.1	21	87	0	63	31	8	13	46	1.74
19578--19633	28	2.0	28	86	6	78	39	16	10	33	1.83
19764--20068	151	2.0	152	94	0	531	36	20	9	34	1.85
20053--20157	54	1.9	53	86	7	149	39	19	4	37	1.73
20714--20773	27	2.3	27	82	5	79	35	26	6	31	1.82
23258--23292	18	2.1	16	89	10	52	48	20	2	28	1.63
24340--24371	6	5.2	6	96	3	55	65	0	0	34	0.93
24425--24464	11	3.5	11	86	10	53	65	0	0	35	0.93
26154--26255	35	2.9	36	83	1	125	39	14	20	25	1.91
26533--27608	106	10.2	106	91	1	1701	23	17	24	34	1.96
28982--29013	14	2.4	14	94	5	57	0	9	6	84	0.78
28969--29013	14	3.4	13	87	9	56	2	8	6	82	0.93
28969--29050	20	4.0	20	78	15	78	2	10	7	79	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30181--30231	27	1.9	26	84	11	68	49	5	15	29	1.68
31987--32017	11	2.8	11	95	0	53	64	0	0	35	0.94
33187--33230	3	14.0	3	86	9	52	61	0	0	38	0.96
33175--33218	16	2.5	17	82	14	54	63	0	2	34	1.07
33187--33230	16	2.8	16	89	0	61	61	0	0	38	0.96
33187--33230	19	2.3	19	88	0	61	61	0	0	38	0.96
37001--37078	41	1.9	41	89	5	122	53	17	10	17	1.71
38476--38523	23	2.1	23	84	0	60	35	4	6	54	1.45
38905--39079	20	8.6	20	67	11	97	27	21	20	31	1.98
38905--39058	40	3.8	40	78	4	155	27	20	20	31	1.97
39255--39297	22	2.0	22	95	0	77	23	41	16	18	1.89
39683--39750	20	3.5	20	87	2	102	11	16	22	50	1.77
41382--41431	18	2.8	18	100	0	100	32	20	6	42	1.76
41579--41626	20	2.4	20	78	0	60	33	22	20	22	1.97
42204--42286	21	4.0	21	74	0	67	22	36	18	22	1.95
42210--42290	42	1.9	42	82	5	101	22	38	18	20	1.94
43679--43717	14	2.8	14	92	0	60	38	0	15	46	1.46
43933--44196	20	13.9	20	75	10	230	28	17	21	33	1.96
43933--44062	59	2.2	60	91	1	208	29	19	21	30	1.97
43974--44188	54	3.9	54	82	4	216	26	16	22	34	1.95
44167--44436	140	1.9	140	98	0	522	42	15	12	28	1.84
46759--46811	24	2.2	24	89	0	79	41	16	16	24	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47745--47800	21	2.6	22	74	5	69	39	17	25	17	1.92
47623--47811	20	9.3	20	77	7	114	29	19	22	28	1.98
47738--47820	41	2.0	42	83	4	105	33	19	25	21	1.97
48012--48063	2	26.5	2	96	3	97	50	0	0	50	1.00
48686--48718	15	2.1	16	94	5	59	51	0	0	48	1.00
49194--49557	179	2.0	182	97	2	689	36	10	11	41	1.76
50267--50304	20	1.9	19	89	5	58	63	0	2	34	1.09
51202--51280	37	2.1	37	81	9	90	67	1	6	25	1.22
53318--53791	106	4.5	106	91	0	732	22	18	24	34	1.96
58513--58635	60	2.0	60	96	0	228	52	5	22	19	1.67
72086--72194	23	4.7	23	86	2	139	28	23	21	26	1.99
76848--76928	40	2.0	41	97	2	155	32	17	7	43	1.77
77218--77388	80	2.2	80	97	1	326	38	15	5	40	1.71
79534--79565	12	2.7	12	95	0	55	43	12	28	15	1.83
83818--83844	14	1.9	14	100	0	54	33	14	14	37	1.88
84993--85022	15	2.0	15	100	0	60	33	6	33	26	1.83
90081--90150	14	4.5	14	71	22	59	52	0	2	44	1.15
90233--90294	26	2.4	26	74	15	65	51	3	3	41	1.34
90425--90477	24	2.2	24	83	12	65	43	1	0	54	1.11
90659--90721	23	2.6	24	78	19	60	47	0	1	50	1.10
94084--94117	14	2.4	14	90	0	50	61	0	14	23	1.33
94819--94913	39	2.4	41	87	3	131	37	11	14	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94819--94891	17	4.0	17	77	16	74	39	10	13	35	1.80
94836--94961	24	5.5	23	76	19	97	35	14	16	33	1.89
96489--96544	21	2.8	20	78	10	60	33	1	1	62	1.16
112260--112303	2	22.0	2	90	0	70	45	0	4	50	1.22
113460--113501	22	2.0	21	86	13	59	45	0	11	42	1.41
113793--113822	13	2.2	14	94	5	53	0	23	0	76	0.78
113793--113822	7	4.4	7	91	8	53	0	23	0	76	0.78
114376--114407	15	2.1	15	94	0	55	37	18	12	31	1.88
114392--114459	23	3.0	23	82	4	84	39	23	17	19	1.92
114421--114496	35	2.2	35	90	0	116	35	25	19	19	1.95
114456--114529	23	3.2	24	81	7	82	41	21	16	20	1.90
116092--116146	20	2.7	21	73	18	62	32	23	20	23	1.98
116254--116297	16	2.8	16	83	16	56	54	18	11	15	1.70
119743--119811	23	3.0	23	80	0	93	30	24	26	18	1.98
120026--120092	23	3.0	23	93	2	109	31	25	11	31	1.92
120705--120746	20	2.3	19	84	12	52	38	14	0	47	1.44
121127--121184	20	2.7	20	86	10	71	27	22	18	31	1.97
121172--121293	64	1.9	64	83	3	156	23	23	18	34	1.96
123136--123222	32	2.6	33	83	7	97	21	4	13	59	1.52
123167--123233	34	1.9	35	82	8	84	22	7	14	55	1.65
126133--126558	212	2.0	212	100	0	852	29	19	17	33	1.95
129150--129523	188	2.0	187	94	0	658	19	29	14	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
132003--132078	33	2.2	35	84	11	95	65	0	0	34	0.93
132293--132339	23	2.0	24	83	8	60	59	6	0	34	1.23
133533--133595	3	21.0	3	90	6	101	63	0	1	34	1.04
133740--134232	121	4.1	121	90	2	696	27	18	21	31	1.97
133740--134200	245	1.9	238	89	3	708	27	18	21	31	1.97
134893--134948	22	2.5	22	91	0	85	37	14	16	32	1.88
135321--135519	54	3.7	54	84	0	236	25	21	13	39	1.90
136435--136618	76	2.4	75	83	3	226	30	19	16	33	1.94
140097--140128	16	2.0	16	100	0	64	6	12	0	81	0.87
141512--141548	19	2.0	18	89	5	56	32	21	0	45	1.52
145656--145702	23	2.2	21	82	14	53	51	0	2	46	1.13
145882--145939	3	19.3	3	100	0	116	67	0	0	32	0.91
147078--147130	3	17.7	3	80	7	63	58	0	3	37	1.16
147663--147694	16	2.0	16	93	0	55	40	0	18	40	1.51
154450--154505	18	3.4	16	79	13	60	51	0	1	46	1.11
154460--154507	18	2.7	18	96	0	87	50	0	4	45	1.21
158552--158585	17	2.0	17	94	0	59	47	8	5	38	1.59
161067--161107	21	2.0	20	85	4	55	36	7	19	36	1.80
161566--161715	23	6.4	23	80	11	114	18	19	26	36	1.95
161678--161736	24	2.5	24	80	2	75	27	18	18	35	1.94
170671--170711	21	2.0	21	85	9	57	43	17	12	26	1.84
175209--175250	22	1.9	22	85	9	59	14	2	2	80	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
176133--176160	13	2.2	13	100	0	56	32	17	21	28	1.96
180273--180329	24	2.4	24	96	0	105	24	19	12	43	1.85
181817--181860	18	2.4	18	100	0	88	18	25	18	38	1.92
184767--184837	20	3.5	20	80	0	70	32	16	23	26	1.96
188376--188433	3	19.7	3	89	10	93	32	0	0	67	0.91
188378--188433	22	2.5	22	94	5	96	32	0	0	67	0.91
188376--188433	25	2.3	26	94	5	102	32	0	0	67	0.91
188734--188788	22	2.5	22	90	0	83	47	29	10	12	1.76
188747--188796	22	2.3	22	96	0	91	42	34	8	16	1.77
192266--192313	17	2.8	17	87	6	71	75	4	18	2	1.07

Tables:   1   2   3