genome.fa.s9462.2.7.7.80.10.50.1000.1.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  1  of  91  ( 10815 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)
5120--5631	227	2.3	226	93	1	864	47	13	15	23	1.81
7220--7271	27	1.9	27	84	0	68	28	13	25	32	1.93
8955--9320	111	3.3	111	89	2	522	32	11	11	45	1.75
9789--10231	111	4.0	111	89	4	641	32	12	10	44	1.77
9796--10231	218	2.0	219	89	4	664	32	12	10	44	1.77
8950--11246	908	2.5	911	91	2	3654	35	10	10	43	1.74
10674--11140	110	4.2	111	88	1	661	30	11	11	46	1.75
11605--11664	23	2.5	25	78	10	79	35	13	6	45	1.70
11508--11763	87	3.0	86	87	4	356	33	12	10	43	1.77
11697--11740	23	1.9	23	90	0	70	36	15	11	36	1.84
11797--11832	16	2.2	16	90	5	54	30	25	5	38	1.78
12539--12608	23	3.2	23	73	22	71	50	1	2	45	1.25
12544--12608	20	3.2	20	74	18	62	49	1	3	46	1.27
12843--13150	158	1.9	158	92	1	519	34	13	13	39	1.83
13961--13987	14	1.9	14	100	0	54	70	0	7	22	1.12
15984--16032	19	2.6	19	96	3	91	53	20	10	16	1.72
18835--18872	20	1.9	20	100	0	76	21	28	36	13	1.91
33764--33802	20	2.0	20	89	0	60	33	10	23	33	1.88
37406--37445	19	2.3	18	84	16	50	62	0	20	17	1.33
39104--39142	20	2.0	20	89	0	60	33	10	23	33	1.88
42985--43145	81	2.0	81	85	4	218	36	12	18	32	1.88
43967--44055	44	2.0	44	97	0	169	35	11	12	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44368--44411	22	2.0	22	100	0	88	45	22	4	27	1.72
45661--45694	16	2.1	16	88	0	50	50	0	2	47	1.16
45737--45770	16	2.0	18	88	11	54	26	2	5	64	1.30
46240--46487	130	1.9	130	91	0	406	35	12	15	36	1.84
48944--48971	2	14.0	2	100	0	56	50	0	0	50	1.00
51859--51899	21	1.9	22	90	5	66	75	17	7	0	1.02
51870--51898	13	2.3	13	94	5	51	75	17	6	0	1.01
54509--54535	9	3.0	9	100	0	54	22	11	11	55	1.66
56462--56517	10	5.7	10	91	4	96	91	8	0	0	0.43
56462--56526	11	6.3	11	84	10	68	87	10	1	0	0.61
56462--56518	1	57.0	1	82	0	69	91	8	0	0	0.43
56461--56526	21	3.3	20	85	10	91	86	12	1	0	0.64
61200--61274	31	2.4	31	84	2	96	42	9	16	32	1.79
63892--64027	21	6.5	21	74	13	127	18	21	26	33	1.96
63917--64027	42	2.7	41	97	0	186	18	19	27	35	1.95
65345--65387	18	2.5	17	85	7	61	67	2	4	25	1.22
66541--67264	105	7.0	105	93	1	1158	22	17	26	33	1.96
66541--67264	207	3.5	208	91	2	1159	22	17	26	33	1.96
66542--67264	312	2.3	313	92	2	1170	22	17	26	33	1.96
67905--68062	68	2.4	66	84	6	203	36	8	22	32	1.85
68038--68159	36	3.4	35	78	8	131	40	13	19	26	1.89
68644--68677	17	2.0	17	94	0	59	44	29	8	17	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69102--69145	22	2.0	22	91	8	72	27	11	22	38	1.88
69732--69776	23	1.9	24	86	4	65	0	17	6	75	1.01
69755--69791	11	3.5	11	92	3	58	0	8	8	83	0.80
69764--69801	12	3.2	12	85	3	51	0	13	7	78	0.94
69764--69794	12	2.7	12	95	5	55	0	9	9	80	0.90
73832--73858	14	1.9	14	100	0	54	74	3	0	22	0.98
73980--74096	59	2.1	57	79	12	125	59	4	3	32	1.33
77492--77530	20	2.0	20	89	0	60	33	10	23	33	1.88
81319--81479	81	2.0	81	85	4	218	36	12	18	32	1.88
82285--82373	44	2.0	44	100	0	178	35	11	11	41	1.77
82681--82724	22	2.0	22	100	0	88	45	22	4	27	1.72
84845--84894	25	2.0	25	88	11	77	48	0	8	44	1.32
85363--85398	2	18.0	2	100	0	72	50	0	0	50	1.00
87724--87800	31	2.4	33	82	8	95	40	9	16	33	1.81
91430--91565	21	6.5	21	74	13	127	18	21	26	33	1.96
91455--91565	42	2.7	41	97	0	186	18	19	27	35	1.95
94523--94561	20	2.0	20	89	0	60	33	10	23	33	1.88
98377--98535	80	2.0	80	84	7	207	35	12	18	33	1.88
99013--99057	16	2.8	16	96	0	81	44	13	13	28	1.81
99807--99891	43	2.0	44	97	2	163	36	11	10	41	1.76
102867--102896	2	15.0	2	100	0	60	50	0	0	50	1.00
105635--105709	31	2.4	32	86	4	107	40	9	17	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
109221--109275	19	2.9	19	94	0	92	34	23	20	21	1.97
109343--109520	21	8.5	21	73	14	143	20	20	24	34	1.97
109368--109520	42	3.7	41	92	0	243	20	20	24	34	1.96
109358--109520	84	1.9	85	94	2	292	20	20	23	34	1.97
113812--113848	18	2.0	19	89	5	58	16	5	10	67	1.38
120989--121140	36	4.3	36	84	7	195	36	24	18	21	1.95
121429--121530	42	2.5	41	80	1	105	26	21	22	29	1.99
121256--121937	216	3.1	219	92	2	1106	34	14	18	32	1.91
121969--122144	57	3.1	54	72	12	151	34	15	20	30	1.93
127101--127157	19	3.0	19	94	0	96	33	28	15	22	1.95
127284--127358	21	3.6	21	71	10	73	40	22	17	20	1.92
127262--127359	41	2.4	41	91	0	151	39	23	15	21	1.91
127895--127943	20	2.5	20	86	0	62	20	18	24	36	1.94
127911--127966	20	2.8	20	86	0	67	12	17	21	48	1.80
129153--129191	20	2.0	20	100	0	78	15	20	25	38	1.92
129188--129225	20	1.9	20	100	0	76	15	10	23	50	1.75
129710--129749	21	2.0	20	86	13	57	25	30	15	30	1.95
129753--129825	21	3.5	21	72	7	76	21	38	19	20	1.94
129711--129822	42	2.7	42	79	8	120	23	36	17	22	1.95
130563--130605	3	14.7	3	85	4	61	37	0	2	60	1.10
132769--132834	30	2.2	30	78	5	71	18	7	9	65	1.45
134051--134087	14	2.6	14	100	0	74	29	0	21	48	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
134207--134260	20	2.7	21	78	16	62	42	25	18	12	1.86
134263--134399	20	7.2	20	81	9	160	26	20	20	32	1.97
136861--136914	24	2.2	24	87	6	74	42	20	16	20	1.89
137568--137603	17	2.1	17	100	0	72	25	5	36	33	1.79
137751--137819	20	3.4	20	71	11	68	23	15	27	33	1.95
137840--137880	21	2.0	21	85	0	55	36	19	19	24	1.95
137730--137909	41	4.4	41	72	4	130	29	16	22	31	1.96
140907--140997	29	3.6	25	68	18	71	43	1	3	51	1.25
140962--141043	21	3.9	21	75	12	71	47	1	2	48	1.22
141405--141442	2	19.0	2	94	0	67	52	0	0	47	1.00
141955--142116	26	5.9	26	70	16	103	45	3	11	39	1.59
141957--142085	56	2.3	56	81	7	147	45	4	9	40	1.57
166778--166852	10	7.7	10	69	21	61	57	21	12	9	1.62
166782--166846	16	4.1	16	95	0	121	56	23	12	7	1.61
167597--167652	14	4.3	14	76	17	66	53	23	12	10	1.69
167577--167651	24	3.1	24	86	3	98	56	20	10	13	1.66
168956--169005	25	2.0	25	100	0	100	28	12	20	40	1.87
169306--169403	44	2.2	44	98	0	187	38	10	6	44	1.63
173510--173562	20	2.7	20	96	0	97	30	18	18	32	1.96
173764--173836	35	2.0	38	92	7	125	32	20	9	36	1.85
176173--176221	20	2.5	20	96	0	89	14	12	42	30	1.82
177552--177582	11	2.8	11	100	0	62	38	51	9	0	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
179846--179893	24	2.0	24	83	0	60	35	18	25	20	1.95
189456--189517	18	3.4	18	95	0	106	53	9	12	24	1.69
190386--190456	24	3.0	24	83	2	90	29	23	25	21	1.99
194878--194933	22	2.7	21	75	10	62	17	23	32	26	1.97
200337--200375	20	2.0	20	84	0	51	23	7	23	46	1.78
200575--200612	20	1.9	20	88	0	58	13	26	36	23	1.91
212473--212632	64	2.5	62	83	8	171	33	18	20	27	1.96
213093--213310	103	2.1	103	95	0	391	25	12	24	37	1.90
213335--213394	23	2.6	23	84	5	68	23	18	26	31	1.97
219449--219576	64	2.0	67	90	7	210	34	19	19	26	1.96

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   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91