genome.fa.s9604.2.7.7.80.10.50.1000.1.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: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3548142

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  1  of  17  ( 1985 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)
1040--1105	30	2.2	30	86	5	89	34	25	27	12	1.91
4629--4665	2	19.5	2	89	10	60	48	0	0	51	1.00
4632--4665	15	2.3	15	94	0	59	50	0	0	50	1.00
4665--4789	29	4.3	29	83	8	157	35	9	0	54	1.39
4653--4789	55	2.4	58	80	10	163	36	8	0	54	1.37
4764--4804	22	1.9	21	85	5	55	39	4	0	56	1.21
4900--4960	30	2.1	28	84	6	77	45	1	9	42	1.47
4966--5068	28	3.7	27	82	8	118	56	0	8	33	1.37
6525--6617	21	4.6	20	77	4	87	39	17	24	18	1.91
6542--6617	21	3.7	21	80	3	100	40	18	25	15	1.90
6525--6617	41	2.3	41	98	0	177	39	17	24	18	1.91
6544--6678	41	3.3	41	82	6	132	38	20	21	19	1.94
6606--6700	20	4.7	20	80	2	91	34	24	17	23	1.96
6885--6928	22	2.0	22	95	0	79	20	45	15	18	1.85
8538--8582	18	2.5	18	85	0	63	26	42	15	15	1.87
9065--9120	20	2.8	20	75	2	60	39	19	23	17	1.92
9093--9174	19	4.6	19	75	17	95	45	19	20	14	1.85
9216--9282	19	3.5	19	83	4	89	14	23	23	37	1.93
9228--9282	20	2.8	19	89	5	83	16	25	23	34	1.95
11281--11398	19	6.8	19	78	19	143	47	16	21	14	1.82
11301--11360	32	1.9	31	96	3	111	50	18	18	13	1.78
11252--11398	51	2.9	52	91	3	235	44	19	21	14	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11417--11474	20	2.9	20	94	0	98	17	22	22	37	1.93
12524--12577	24	2.2	24	90	0	81	24	16	20	38	1.92
15053--15174	33	3.7	33	84	7	169	43	20	21	14	1.87
15053--15181	66	2.0	65	92	4	215	42	20	20	16	1.89
15357--15393	14	2.6	14	91	0	65	45	24	0	29	1.53
16780--16862	42	2.0	42	85	2	114	22	16	38	21	1.93
18782--18843	20	3.2	20	81	4	72	43	17	24	14	1.86
18780--18961	19	10.1	19	75	15	154	43	22	21	12	1.86
18780--18961	33	5.1	38	78	14	147	43	22	21	12	1.86
18957--19001	19	2.4	19	92	0	72	8	15	26	48	1.74
19547--19599	20	2.7	20	93	0	88	26	20	28	24	1.99
19630--19722	20	4.5	21	78	4	100	17	24	18	39	1.91
19569--19703	41	3.3	41	83	4	139	19	21	21	37	1.94
19630--19722	41	2.3	41	100	0	186	17	24	18	39	1.91
21945--21973	13	2.1	14	93	6	51	27	24	6	41	1.80
35688--35727	21	1.9	21	84	0	53	27	17	20	35	1.95
37617--37684	35	1.9	35	84	0	91	36	20	19	23	1.95
39340--39495	61	2.6	61	77	3	163	42	5	20	30	1.75
40756--40797	16	2.6	16	88	0	66	14	28	19	38	1.90
44155--44182	2	14.0	2	100	0	56	50	0	0	50	1.00
44743--44820	24	3.2	24	80	10	88	14	8	19	57	1.63
44774--44805	10	3.2	10	95	0	55	9	6	21	62	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48144--48185	2	21.0	2	100	0	84	50	0	0	50	1.00
49988--50115	63	2.0	63	95	0	229	23	18	20	37	1.94
52251--52316	32	2.1	32	94	0	114	53	16	7	22	1.68
52760--52860	23	4.3	23	83	7	105	12	8	18	59	1.59
52806--52851	13	3.8	13	75	16	53	10	8	19	60	1.55
57733--57793	2	30.5	2	96	0	113	52	0	0	47	1.00
59935--59979	22	2.0	22	100	0	90	31	15	22	31	1.95
60646--60910	92	3.0	92	91	8	446	40	10	17	32	1.83
60754--60913	80	2.0	80	100	0	320	41	11	17	30	1.84
61148--61183	2	19.0	2	88	11	58	47	0	0	52	1.00
61147--61183	9	4.0	9	93	6	65	45	0	0	54	1.00
65142--65215	21	3.5	21	98	0	139	24	6	28	40	1.80
65434--65834	140	2.9	139	85	4	522	36	16	17	29	1.92
66180--66296	62	2.0	59	88	9	177	54	14	10	20	1.69
75281--75305	11	2.3	11	100	0	50	60	8	0	32	1.26
78182--78237	10	5.6	10	93	0	76	50	7	0	42	1.30
78186--78234	2	24.5	2	91	0	80	51	4	0	44	1.20
79646--79687	18	2.2	20	87	8	61	57	0	7	35	1.26
79767--79804	2	19.0	2	100	0	76	50	0	0	50	1.00
80829--80895	3	23.0	3	93	6	120	65	0	0	34	0.93
80920--80959	18	2.2	18	86	4	53	50	7	5	37	1.53
82129--82185	24	2.6	21	77	8	60	54	8	3	33	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
82112--82213	42	2.4	44	76	15	106	50	5	3	39	1.45
82176--82237	26	2.4	26	76	15	65	45	6	4	43	1.51
83882--83906	11	2.3	11	100	0	50	0	0	16	84	0.63
92523--92551	2	14.5	2	100	0	58	51	0	0	48	1.00
93970--94019	26	2.0	25	84	4	64	48	4	8	40	1.51
94024--94082	2	29.5	2	80	13	68	45	1	3	49	1.28
95108--95168	3	20.7	3	93	3	106	65	0	0	34	0.93
95334--95390	24	2.3	24	84	3	69	47	3	3	45	1.37
107791--107821	3	10.3	3	100	0	62	0	32	0	67	0.91
116382--116643	138	1.9	139	84	0	355	39	15	14	30	1.88
116452--116822	193	1.9	192	84	2	494	39	14	17	29	1.89
118451--119599	229	5.2	226	94	4	1934	43	7	8	39	1.64
119648--119694	20	2.4	19	86	10	67	55	10	14	19	1.68
119830--119876	20	2.4	19	82	10	67	53	10	17	19	1.72
119839--119881	20	2.3	19	88	11	63	51	11	16	20	1.75
122095--122138	21	2.1	21	91	0	70	40	11	31	15	1.83
122172--122237	33	2.0	33	88	5	98	28	1	48	21	1.59
124028--124073	19	2.4	19	92	3	74	32	2	8	56	1.42
124207--125548	200	6.7	199	95	0	2361	37	14	16	31	1.88
124207--125548	399	3.4	399	96	0	2406	37	14	16	31	1.88
127015--127101	12	7.4	12	87	3	97	36	6	34	21	1.81
127012--127101	6	15.3	6	79	4	67	37	6	34	21	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
127015--127090	35	2.1	36	92	2	127	36	7	34	21	1.82
127027--127105	3	27.0	3	78	5	81	36	5	34	24	1.77
128286--128319	16	2.1	16	88	0	50	47	8	20	23	1.78
128676--128748	23	3.2	23	88	0	101	34	4	21	39	1.73
129039--129083	22	2.0	22	83	8	56	42	11	8	37	1.72
129125--129614	183	2.7	181	90	2	766	35	14	16	34	1.89
132059--132118	25	2.4	25	88	0	84	33	8	15	43	1.76
132397--132441	20	2.2	21	80	11	58	37	13	11	37	1.80
132458--132534	23	3.5	22	85	3	93	33	3	22	40	1.72
132642--132687	24	2.0	24	91	4	76	28	8	19	43	1.80
133225--133310	38	2.2	38	93	2	145	48	19	13	17	1.80
134064--134126	23	2.7	23	92	0	99	38	4	19	38	1.73
134064--134136	23	3.2	22	84	7	83	35	4	20	39	1.72
134493--134555	23	2.7	23	92	0	99	38	4	19	38	1.73
134493--134565	23	3.2	22	84	7	83	35	4	20	39	1.72
133954--135574	430	3.8	431	96	0	2954	39	7	12	39	1.72
134923--134995	23	3.2	23	84	0	92	34	4	20	41	1.72
135362--135428	21	3.1	21	75	12	64	34	4	20	40	1.73
135571--135634	23	2.8	23	95	0	119	35	21	7	34	1.83
141252--141334	41	2.0	41	100	0	166	26	26	14	32	1.95
144779--144840	30	2.1	30	82	8	74	29	17	6	46	1.73
148967--149055	29	3.2	28	78	10	101	41	10	1	47	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
149153--149188	18	2.1	18	89	5	56	44	13	0	41	1.44
152683--152730	20	2.4	20	100	0	96	50	39	0	10	1.37
164848--164937	29	3.2	28	64	10	76	26	14	4	54	1.59
164818--164943	56	2.2	58	88	5	188	27	16	4	50	1.65
168703--168784	39	2.1	39	97	0	155	28	13	4	53	1.60
169180--169260	22	3.6	23	79	12	80	43	22	19	14	1.88
177252--177327	3	26.0	3	79	10	68	60	0	1	38	1.05
177734--178150	201	2.1	203	94	0	739	32	22	15	29	1.95
180498--180531	14	2.6	13	90	9	52	0	17	0	82	0.67
184014--184093	21	3.8	21	86	0	124	26	30	21	22	1.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17