genome.fa.s9639.2.7.7.80.10.50.1000.1.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  1  of  62  ( 7398 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)
4172--4245	8	7.6	10	75	21	61	77	0	6	16	0.98
4161--4245	28	3.0	27	75	17	84	76	0	9	14	1.02
4183--4244	9	6.6	9	82	15	63	80	0	4	14	0.87
4183--4245	17	3.4	18	86	10	83	79	0	4	15	0.90
5223--5949	53	13.7	55	84	7	916	28	15	28	28	1.96
5223--5949	55	13.7	55	83	8	877	28	15	28	28	1.96
5223--5949	266	2.7	270	85	5	959	28	15	28	28	1.96
8713--8773	26	2.3	26	83	10	72	45	1	1	50	1.21
14310--14363	20	2.7	19	83	11	63	44	20	16	18	1.87
16707--16754	13	3.8	12	84	10	60	75	0	22	2	0.91
18885--19264	34	11.1	34	84	9	479	34	22	20	22	1.97
18885--19264	102	3.7	102	90	5	547	34	22	20	22	1.97
19583--19650	20	3.3	19	69	15	55	20	23	22	33	1.97
20009--20124	20	5.7	20	66	9	63	23	23	23	30	1.99
20008--20109	42	2.5	41	85	1	141	23	22	22	31	1.98
19260--20564	214	6.1	214	90	4	2009	32	15	20	31	1.94
19260--20564	430	3.1	429	91	3	2074	32	15	20	31	1.94
20441--20538	42	2.3	42	92	0	160	23	22	20	33	1.97
20464--20531	22	3.2	21	68	16	59	26	19	19	35	1.95
24985--25023	20	2.0	19	85	5	51	51	0	2	46	1.14
26163--26216	27	2.0	27	100	0	108	29	3	22	44	1.70
31968--32025	21	2.9	21	84	5	75	46	20	15	17	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34557--34589	13	2.6	13	90	4	50	75	0	24	0	0.80
34581--34610	13	2.3	13	100	0	60	70	0	16	13	1.18
36749--37126	105	3.6	105	91	3	613	34	21	20	22	1.96
37451--37516	20	3.2	19	68	16	51	19	24	22	33	1.97
37453--37549	42	2.3	41	87	1	140	21	23	22	31	1.98
37130--38413	214	6.1	205	89	5	1645	31	16	19	32	1.94
37866--37932	20	3.3	19	69	19	55	20	23	22	32	1.98
37130--38413	415	3.1	420	90	5	1968	31	16	19	32	1.94
37400--38413	210	4.8	213	90	4	1580	31	16	19	32	1.94
38293--38388	41	2.3	42	89	3	142	22	22	19	34	1.97
38315--38381	22	3.2	21	67	14	57	25	19	19	35	1.95
42800--42838	21	1.9	20	84	5	51	48	2	2	46	1.29
43967--44006	19	2.1	19	86	9	55	50	10	2	37	1.50
44548--45124	99	5.8	99	91	0	904	33	22	16	27	1.96
49966--50004	19	2.1	19	100	0	78	64	10	15	10	1.50
53989--54706	363	2.0	364	96	0	1321	32	14	11	41	1.81
57397--58156	81	9.4	81	85	1	880	29	17	25	27	1.97
58108--58328	108	2.0	108	85	3	293	33	19	19	28	1.96
58108--58328	54	4.1	54	84	1	264	33	19	19	28	1.96
64130--64184	26	2.1	26	93	0	92	34	7	16	41	1.76
65893--65934	8	4.7	9	83	16	52	30	0	2	66	1.04
75350--75381	2	16.5	2	93	6	57	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)
76550--76614	2	32.5	2	100	0	130	49	0	0	50	1.00
80620--80673	20	3.0	18	76	13	58	57	24	11	7	1.58
100272--100375	35	2.9	35	77	7	120	23	20	21	35	1.96
100561--100625	26	2.5	26	89	0	103	24	13	13	47	1.80
105973--106105	21	6.3	20	84	10	126	21	19	21	38	1.94
105973--106131	42	3.8	42	85	6	232	20	18	22	38	1.93
106808--106920	21	5.4	21	86	6	140	22	22	25	30	1.99
106808--106920	41	2.7	42	86	6	142	22	22	25	30	1.99
107890--107945	19	3.0	19	77	12	62	57	3	1	37	1.27
108083--108152	31	2.3	32	78	14	76	42	1	0	55	1.08
110101--110217	21	5.6	21	80	11	116	25	24	21	28	1.99
110123--110361	21	11.6	20	74	13	148	23	22	23	31	1.98
110184--110361	83	2.1	83	95	0	320	21	21	23	32	1.98
110116--110324	41	5.0	41	80	10	248	23	22	22	32	1.98
110123--110345	62	3.6	62	77	11	233	22	22	22	32	1.98
110758--110794	12	3.0	12	88	4	56	16	54	18	10	1.71
110816--110901	40	2.2	38	85	4	109	53	0	0	46	1.00
110853--110897	15	2.8	17	74	22	51	48	0	0	51	1.00
113059--113139	30	2.7	30	92	0	135	30	37	19	12	1.89
114035--114069	15	2.2	16	90	5	54	25	2	0	71	1.00
114055--114185	67	2.0	65	84	10	171	26	9	3	60	1.44
114317--114351	18	2.0	18	88	5	54	48	2	2	45	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
119728--119879	51	3.0	51	95	1	279	30	13	18	36	1.90
120053--120096	7	6.4	7	97	2	81	59	11	29	0	1.32
121593--121657	7	9.3	7	76	18	55	47	9	0	43	1.35
121599--121651	22	2.5	21	87	6	72	49	5	0	45	1.26
128536--128577	21	2.0	20	86	4	57	38	14	7	40	1.73
133856--133897	20	2.0	21	90	4	68	40	14	4	40	1.67
135981--136148	59	2.8	57	78	7	183	33	23	5	37	1.79
144015--144405	195	2.0	195	97	1	739	45	16	14	23	1.85
151892--151939	16	2.8	18	78	12	57	62	2	0	35	1.07
153942--153979	19	2.0	19	89	0	58	34	2	18	44	1.64
153957--154028	33	2.2	33	84	0	99	30	8	13	47	1.73
157905--157998	31	3.0	31	90	0	143	22	17	23	37	1.94
158248--158300	25	2.1	25	100	0	106	45	0	26	28	1.54
158669--158710	21	2.0	21	95	0	75	21	23	30	23	1.99
158672--158718	21	2.2	21	84	3	58	23	29	27	19	1.98
158758--158784	10	2.7	10	100	0	54	25	11	11	51	1.70
159394--159455	28	2.3	26	86	10	88	27	3	1	67	1.15
159443--159508	30	2.4	26	73	22	62	39	6	1	53	1.35
159535--159598	31	2.1	30	82	2	74	43	3	1	51	1.26
159580--159731	31	4.9	31	71	10	98	50	0	5	44	1.24
159606--159715	29	3.7	29	81	4	121	50	0	5	43	1.25
170396--170434	16	2.4	17	83	8	55	46	5	2	46	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
170536--170778	97	2.5	97	88	0	362	35	6	16	42	1.73
170704--170774	29	2.4	29	83	2	97	32	8	11	47	1.69
170693--171016	137	2.3	139	87	2	454	38	9	11	40	1.75
170841--170904	29	2.2	29	88	0	92	35	9	10	43	1.72
170870--171128	112	2.3	112	88	0	365	37	10	10	41	1.75
171094--171156	28	2.2	29	88	2	92	36	7	7	47	1.62
172391--172458	32	2.1	32	83	0	82	29	27	2	39	1.71
175284--175344	30	2.0	30	81	12	72	47	1	1	49	1.21
178629--178661	3	11.0	3	100	0	66	33	0	0	66	0.92
179787--179904	42	2.8	42	82	6	116	32	16	22	28	1.96
190669--190719	18	2.8	18	96	0	93	27	35	23	13	1.93
190682--190754	15	4.3	15	77	20	65	30	34	20	15	1.93
193092--193132	21	2.0	21	85	0	55	46	19	31	2	1.63
193102--193141	21	1.9	21	89	0	62	50	17	27	5	1.67
193146--193194	21	2.3	20	80	16	55	48	16	28	6	1.69
193158--193212	21	2.6	21	88	0	83	47	20	30	1	1.60
193624--193789	43	3.9	43	80	9	178	34	25	19	20	1.96
194740--194784	21	2.1	21	83	0	54	17	28	15	37	1.91
194794--194929	41	3.3	41	82	4	159	26	20	16	36	1.94
194794--194928	20	6.6	20	81	9	157	25	20	17	36	1.94
194794--194929	61	2.2	62	89	6	224	26	20	16	36	1.94
195790--195843	24	2.2	24	93	0	90	20	18	20	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
195814--195984	69	2.5	69	95	0	297	29	12	21	36	1.91
198405--198459	19	2.8	19	83	2	65	38	21	21	18	1.94
198432--198523	33	2.8	33	96	0	166	45	18	23	11	1.83
198412--198523	19	6.4	18	70	21	78	43	19	24	12	1.85
198646--198700	19	2.8	19	83	2	65	38	21	21	18	1.94
198673--198764	33	2.8	33	94	0	157	45	17	23	13	1.83
198296--198776	241	2.0	241	98	0	926	37	16	20	26	1.93
198653--198731	19	4.4	19	75	16	78	43	20	22	13	1.87
198653--198766	19	6.5	19	66	20	68	43	18	24	13	1.85
198776--198855	33	2.4	33	95	0	142	10	25	21	43	1.83

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