genome.fa.s8356.2.7.7.80.10.50.1000.1.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  1  of  56  ( 6656 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)
2133--2194	31	2.2	28	81	16	74	17	24	29	29	1.97
11500--11530	15	2.1	15	93	0	53	12	9	25	51	1.70
12590--12665	35	2.2	35	90	0	116	36	1	22	39	1.63
12767--12838	30	2.4	30	79	2	83	29	11	33	26	1.91
14739--14772	11	3.1	11	91	0	50	55	0	0	44	0.99
14753--14806	18	2.9	18	83	2	72	61	1	1	35	1.18
18653--18702	25	2.0	25	100	0	100	36	8	24	32	1.84
19597--19769	47	3.8	46	84	4	224	33	21	6	37	1.81
19874--19995	40	3.1	39	95	4	217	32	25	17	24	1.96
23957--24000	18	2.3	20	81	18	58	4	13	0	81	0.83
23958--23999	12	3.4	13	80	9	52	4	14	0	80	0.86
23956--24013	28	2.1	27	84	12	75	5	15	0	79	0.90
26299--26341	23	1.9	23	90	4	70	37	20	27	13	1.91
26410--26458	21	2.3	21	100	0	98	28	24	18	28	1.98
26853--27024	47	3.8	45	83	6	211	33	21	6	38	1.79
27129--27250	40	3.0	40	90	4	201	33	25	15	25	1.95
32098--32141	21	2.1	21	91	0	70	31	4	31	31	1.78
32626--32699	27	2.9	24	80	15	69	47	2	2	47	1.30
32702--32812	22	5.1	22	78	16	83	36	6	2	54	1.40
32688--32795	36	2.9	36	87	9	157	37	7	0	54	1.35
32686--32819	7	18.7	7	72	23	75	35	5	2	55	1.40
33825--33863	20	2.0	21	90	10	64	25	2	15	56	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38513--38811	80	3.7	80	92	0	490	31	24	20	23	1.98
43544--43583	20	2.0	20	90	9	64	30	22	17	30	1.97
47447--47500	20	2.8	20	88	2	83	31	29	9	29	1.88
47940--47990	24	2.1	24	88	0	75	35	9	27	27	1.88
48381--48521	21	6.8	21	83	6	180	30	23	22	23	1.99
48578--48616	21	2.0	20	85	10	53	25	20	17	35	1.95
48705--48741	6	6.5	6	96	3	60	29	54	16	0	1.43
49412--49631	21	10.6	20	79	12	205	23	21	24	30	1.99
49386--49486	41	2.5	41	91	3	159	24	20	19	34	1.96
49412--49631	42	5.3	42	81	9	238	23	21	24	30	1.99
49412--49631	104	2.1	104	96	0	404	23	21	24	30	1.99
49412--49615	83	2.4	86	84	9	264	23	21	24	31	1.98
50708--50774	20	3.3	20	91	0	107	37	23	17	20	1.94
50765--50813	20	2.5	20	89	0	80	46	22	8	22	1.77
50807--50851	19	2.4	19	100	0	90	22	26	20	31	1.98
50987--51034	22	2.2	22	88	7	71	25	45	10	18	1.81
51392--51494	19	5.4	19	89	2	154	12	21	20	45	1.84
51392--51494	38	2.7	38	92	3	172	12	21	20	45	1.84
53123--53172	21	2.4	21	86	0	64	22	14	32	32	1.93
53559--53677	21	5.7	21	88	0	148	21	37	18	21	1.94
53554--53677	42	3.0	42	87	0	167	21	37	17	22	1.94
53564--53697	21	6.4	21	84	3	144	20	37	19	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54976--55022	18	2.6	18	86	0	76	17	46	25	10	1.79
57328--57442	24	4.8	24	87	4	160	26	14	19	40	1.90
57331--57459	24	5.4	24	85	3	125	27	12	20	40	1.88
59557--59586	13	2.3	13	94	0	51	13	46	23	16	1.82
62005--62119	24	4.8	24	92	4	160	25	14	20	40	1.90
63745--63779	17	2.1	17	100	0	70	34	0	17	48	1.47
63743--63782	17	2.6	15	82	17	55	30	0	20	50	1.49
63763--63912	65	2.3	64	89	2	228	28	2	17	52	1.58
64124--64176	19	2.7	20	94	5	99	20	20	18	39	1.92
64838--64905	20	3.4	20	84	11	86	32	13	27	26	1.93
65752--65781	15	2.0	15	100	0	60	40	13	13	33	1.83
66923--66968	17	2.6	18	89	3	67	39	23	19	17	1.92
72411--72571	74	2.1	74	80	6	171	26	13	11	49	1.74
73772--73841	23	3.0	23	100	0	140	25	25	25	22	2.00
74132--74203	29	2.5	29	93	0	117	36	13	11	38	1.81
74492--74660	68	2.5	68	83	7	211	19	27	24	28	1.99
74616--74658	21	2.0	21	86	0	59	16	25	27	30	1.97
80621--80691	23	3.1	23	100	0	142	25	25	26	22	2.00
80977--81048	29	2.5	29	93	0	117	36	13	11	38	1.81
81349--81519	66	2.6	66	86	5	220	19	26	25	28	1.99
81477--81519	21	2.0	21	86	0	59	16	25	27	30	1.97
85867--85910	21	2.1	20	84	16	54	18	6	4	70	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
88449--88503	23	2.3	23	96	3	101	25	21	12	40	1.89
89786--89836	21	2.4	21	96	0	93	31	3	45	19	1.69
89786--89844	21	2.8	21	92	0	82	33	3	45	16	1.64
90118--90147	15	2.0	15	100	0	60	20	26	6	46	1.75
92355--92406	3	17.0	3	88	4	68	59	0	1	38	1.08
92774--93764	339	2.9	337	91	4	1547	28	18	15	38	1.91
92774--93764	113	8.8	113	86	4	1339	28	18	15	38	1.91
94166--94220	22	2.5	23	82	8	69	38	16	12	32	1.86
96708--97048	114	3.0	114	94	0	583	31	20	15	33	1.94
104046--104090	23	2.0	23	90	0	72	73	0	0	26	0.84
104049--104104	18	3.0	18	80	17	60	73	0	1	25	0.93
106158--106209	3	17.0	3	92	4	77	61	0	0	38	0.96
106148--106209	19	3.0	21	81	11	83	56	0	0	43	0.99
108220--108260	21	2.0	21	100	0	82	21	24	29	24	1.99
120877--120917	17	2.5	17	88	11	59	29	0	4	65	1.13
122514--122552	18	2.2	18	85	0	51	33	0	2	64	1.08
126652--126694	18	2.4	18	100	0	86	16	48	23	11	1.78
129132--129247	24	4.8	24	85	4	153	26	14	18	40	1.89
130121--130157	20	1.9	20	88	5	58	48	2	16	32	1.60
131596--131643	21	2.3	21	85	3	71	29	27	22	20	1.99
138625--138749	11	11.2	11	66	21	64	41	0	0	57	1.04
138626--138665	20	2.0	21	90	9	66	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
138648--138781	6	21.0	6	67	20	51	43	0	2	54	1.12
138682--138827	25	5.5	25	69	25	77	41	0	2	56	1.14
138637--138827	56	3.4	57	83	13	220	41	0	2	56	1.11
138742--138828	24	3.4	24	74	13	75	39	0	3	57	1.16
138790--138869	41	1.9	42	82	12	103	40	1	1	57	1.15
138835--138881	18	2.5	19	76	16	53	36	0	0	63	0.94
139488--139547	31	1.9	31	93	0	102	43	10	6	40	1.64
143186--143601	183	2.3	181	88	2	618	46	11	13	28	1.77
143426--143761	161	2.1	162	93	1	575	47	12	13	27	1.78
148029--148075	15	2.9	16	76	20	53	40	4	21	34	1.73
148318--148407	31	2.9	30	85	4	117	25	18	21	34	1.96
149844--149874	12	2.5	12	94	5	53	35	3	6	54	1.42
152400--152489	31	2.9	31	85	3	119	26	20	20	33	1.97
155333--155381	15	3.1	16	77	19	57	42	4	20	32	1.71
155617--155703	31	2.9	30	82	14	115	24	19	20	35	1.96
156131--156171	21	2.0	21	95	0	73	24	17	31	26	1.97
156175--156222	23	2.1	23	92	3	80	20	22	35	20	1.96
156175--156233	23	2.6	23	86	2	66	20	23	30	25	1.98
161715--161757	21	2.0	21	100	0	86	37	4	9	48	1.56
162068--162199	65	2.0	65	89	2	203	31	2	40	25	1.68
163445--163469	2	12.5	2	100	0	50	48	0	0	52	1.00
163695--163818	2	62.5	2	95	1	223	50	48	0	1	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
164102--164147	23	2.0	24	82	4	58	34	21	13	30	1.91
164056--164638	225	2.6	225	86	2	823	32	16	13	37	1.87
164548--164596	23	2.1	23	84	0	62	40	18	10	30	1.84
164500--164752	118	2.2	118	89	0	391	32	17	15	35	1.91
165108--165175	2	34.0	2	100	0	136	50	0	0	50	1.00
173976--174053	40	2.0	40	85	10	106	69	1	17	11	1.25
174068--174148	44	2.0	40	81	16	94	16	12	12	59	1.62
201502--201579	25	3.1	24	80	9	66	44	0	0	55	0.99
201562--201640	27	2.9	26	77	14	79	51	0	2	45	1.14
201605--201639	16	2.1	16	89	10	52	54	0	0	45	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56