genome.fa.s9406.2.7.7.80.10.50.1000.1.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: VEPZ01009406.1 Hibiscus syriacus cultivar Beakdansim tig00113338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  689325

Tables:   1   2   3   

This is table  1  of  3  ( 319 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)
365--407	18	2.3	19	96	4	79	53	9	18	18	1.70
2759--2823	21	3.1	21	80	6	69	40	15	29	15	1.88
2861--2920	31	1.9	32	86	3	86	30	0	48	21	1.51
4720--4782	22	2.8	23	82	4	83	36	6	19	38	1.77
4720--4791	23	3.2	23	78	11	76	34	5	19	40	1.75
5140--5201	21	2.8	23	75	7	65	35	6	19	38	1.77
5162--5210	23	2.1	23	85	7	64	36	2	16	44	1.59
5477--5527	25	2.0	25	92	0	84	33	7	19	39	1.81
5769--5805	18	2.1	18	89	0	56	32	5	10	51	1.60
5761--5807	24	2.0	24	86	0	67	34	4	14	46	1.64
6059--6184	39	3.2	39	97	0	234	48	20	13	17	1.81
6585--6648	23	2.8	23	87	0	92	35	6	20	37	1.78
6585--6657	23	3.2	23	82	7	85	34	5	20	39	1.76
12769--12802	15	2.3	15	89	0	50	29	0	2	67	1.05
16393--16430	3	12.3	3	94	5	67	68	0	0	31	0.90
16486--16726	35	6.6	35	72	15	163	42	9	4	43	1.58
16464--16726	72	3.6	69	80	11	246	42	8	4	43	1.57
16539--16759	72	3.1	72	78	11	183	44	8	3	43	1.51
17419--18782	249	5.5	249	94	0	2205	25	20	24	30	1.98
22108--22152	19	2.4	19	92	3	74	66	8	13	11	1.44
25035--25072	3	12.3	3	94	5	67	68	0	0	31	0.90
25130--25409	34	7.6	36	73	14	180	44	8	4	42	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25260--25284	12	2.1	12	100	0	50	44	8	8	40	1.63
25183--25411	36	6.1	39	76	16	184	44	7	3	43	1.50
26460--26506	15	3.1	15	90	0	67	8	63	17	10	1.49
27370--27397	2	14.0	2	100	0	56	50	0	0	50	1.00
32350--32416	33	2.0	33	94	0	116	55	8	2	32	1.46
39268--39315	22	2.2	21	82	10	62	14	18	8	58	1.61
39268--39323	22	2.5	22	80	11	53	14	17	10	57	1.65
46173--46215	21	2.0	21	82	8	52	18	6	23	51	1.70
47399--47431	17	1.9	17	100	0	66	39	0	0	60	0.97
49445--49492	15	3.2	15	96	0	87	52	0	14	33	1.42
52276--52334	29	1.9	32	83	10	79	33	5	25	35	1.78
53975--54032	31	1.9	29	83	13	73	39	10	6	43	1.66
54862--54891	16	1.9	15	93	6	51	60	3	0	36	1.14
55399--55429	15	2.1	15	93	0	53	58	0	0	41	0.98
56205--56263	29	2.0	29	90	0	91	13	37	27	22	1.91
56510--56593	26	3.3	26	89	1	134	44	9	35	10	1.72
56964--57035	30	2.3	30	84	13	85	40	0	11	48	1.39
58999--59753	378	2.0	378	99	0	1483	24	25	17	32	1.97
60531--60575	23	2.0	23	86	0	63	26	26	26	20	1.99
61994--62028	19	1.9	17	88	11	52	60	0	37	2	1.12
63579--63614	12	3.0	12	91	0	63	36	25	5	33	1.79
63880--63930	26	2.0	25	82	14	61	43	1	7	47	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64291--64333	15	2.7	16	78	10	52	72	16	6	4	1.24
64735--64797	28	2.2	30	94	5	112	57	12	0	30	1.36
64739--64804	28	2.4	28	87	10	107	56	12	0	31	1.36
64774--64822	21	2.3	21	85	3	71	53	16	0	30	1.43
64963--64996	6	5.7	6	100	0	68	0	32	14	52	1.42
65530--65591	29	2.1	29	81	0	70	43	9	11	35	1.73
69577--69608	15	2.0	17	88	11	50	46	6	15	31	1.71
79018--79066	20	2.5	19	80	3	53	51	6	4	38	1.46
79501--79563	32	2.0	32	87	6	92	36	26	26	9	1.87
82414--82447	14	2.4	14	85	0	50	35	0	0	64	0.94
82593--82650	23	2.6	21	81	13	62	44	5	1	48	1.35
82695--82744	22	2.2	23	85	3	66	44	2	0	54	1.11
89408--89449	2	21.0	2	100	0	84	50	0	0	50	1.00
96186--96219	5	6.8	5	100	0	68	41	41	0	17	1.50
98492--98562	31	2.3	32	81	16	87	57	11	0	30	1.34
100291--100320	14	2.1	14	100	0	60	66	13	0	20	1.24
100305--100404	31	3.2	31	81	5	139	53	16	9	22	1.70
108387--108433	23	2.1	22	84	4	58	51	0	2	46	1.13
112384--112442	29	2.0	29	100	0	118	23	13	13	49	1.78
115337--115393	27	2.0	29	93	6	100	22	14	14	49	1.79
117427--117535	32	3.6	31	75	16	111	24	10	24	40	1.86
118105--118154	16	3.0	16	85	5	64	24	28	6	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
118456--118483	3	9.3	3	100	0	56	67	0	0	32	0.91
124733--124776	22	2.0	22	81	0	52	52	15	4	27	1.63
127260--127320	3	21.0	3	77	12	65	67	1	3	27	1.16
127520--127968	129	3.5	129	90	2	670	25	19	28	26	1.99
127609--127984	83	4.4	83	72	11	307	23	20	30	25	1.99
127997--128050	28	1.9	28	85	7	74	50	16	12	20	1.78
128066--128248	66	2.8	65	78	10	201	37	16	20	25	1.93
128450--128493	15	2.9	15	93	0	70	43	4	20	31	1.72
128864--128893	1	30.0	1	100	0	60	0	0	0	100	0.00
128967--129159	67	3.0	65	85	8	252	45	11	11	31	1.77
129135--129185	26	2.0	26	96	0	93	49	11	9	29	1.72
129292--129385	28	3.4	27	81	11	111	48	14	10	25	1.76
129520--129652	67	2.0	67	95	1	241	38	10	18	32	1.85
129612--129698	38	2.3	38	84	3	106	36	13	19	29	1.91
130053--130128	16	5.2	16	66	23	60	26	0	26	47	1.52
130053--130128	28	2.7	28	97	0	143	26	0	26	47	1.52
130065--130115	4	13.8	4	76	15	56	29	0	23	47	1.52
131295--131331	11	3.4	11	88	0	56	5	13	10	70	1.32
131932--132016	45	1.9	44	87	2	125	37	10	25	25	1.88
138473--138533	3	21.0	3	77	12	65	67	1	3	27	1.16
140526--140579	17	2.8	20	81	13	69	50	3	1	44	1.30
140682--140941	106	2.5	105	81	4	301	41	13	11	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
140893--140970	29	2.7	29	89	2	111	46	10	8	34	1.69
140801--141070	128	2.1	132	86	6	379	40	13	11	34	1.81
140629--141078	241	1.9	235	87	3	659	40	12	12	34	1.81
141625--141746	29	4.3	29	89	4	160	34	6	27	31	1.82
142191--142221	2	15.5	2	100	0	62	51	0	0	48	1.00
142090--142264	80	2.3	75	81	9	192	42	8	1	48	1.40
142256--142344	28	3.0	31	70	15	80	53	3	4	38	1.38
150147--150176	15	1.9	16	93	6	53	40	16	10	33	1.82
151152--151190	21	1.9	20	84	5	51	71	10	2	15	1.23
152653--152760	7	15.7	7	75	1	76	45	30	1	22	1.63
152659--152766	28	3.9	27	78	6	101	44	30	1	23	1.64
154640--154689	23	2.1	24	88	3	75	62	20	8	10	1.52
161061--161095	3	11.7	3	100	0	70	65	0	0	34	0.93
161320--161405	29	3.0	29	91	0	118	16	31	30	22	1.95
161464--161519	29	1.9	29	88	0	85	16	37	26	19	1.92
161526--161592	33	2.0	33	91	5	109	8	40	25	25	1.84
161664--161721	29	2.0	29	86	0	80	24	27	34	13	1.93
163456--163520	30	2.2	30	86	5	87	60	9	16	13	1.59
175767--175863	44	2.3	42	77	10	106	51	1	1	46	1.14
175830--175881	2	27.0	2	76	7	54	48	0	0	51	1.00
175787--175881	44	2.2	42	88	3	136	50	1	0	48	1.07
178359--178797	127	3.5	127	92	0	729	23	22	20	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
178809--179256	226	2.0	227	99	0	889	31	22	23	21	1.98
180102--180134	2	17.0	2	93	6	59	51	0	0	48	1.00
180901--180956	27	2.2	25	81	18	62	39	3	3	53	1.36
185059--185085	2	13.5	2	100	0	54	51	0	0	48	1.00
186065--186119	24	2.3	23	81	9	65	65	0	1	32	1.03
186065--186118	8	6.8	8	83	6	56	64	0	1	33	1.04
187629--187653	2	12.5	2	100	0	50	48	0	0	52	1.00
188529--188672	64	2.2	65	85	4	193	39	5	8	46	1.57
189049--189111	23	2.7	23	78	7	65	20	11	15	52	1.73
193719--193904	104	1.8	101	90	6	302	38	4	8	48	1.55

Tables:   1   2   3