genome.fa.s5836.2.7.7.80.10.50.1000.1.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: VEPZ01005836.1 Hibiscus syriacus cultivar Beakdansim tig00013680_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  991970

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 705 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)
3777--3810	4	8.2	4	87	6	50	70	0	5	23	1.09
4608--4712	37	2.8	37	95	0	183	30	15	15	39	1.88
9601--9665	22	2.9	22	86	2	94	15	29	27	27	1.96
9602--9680	23	3.5	22	81	5	86	17	26	26	29	1.98
9690--9741	24	2.2	24	89	0	77	21	17	19	42	1.89
9848--9917	6	11.7	6	79	0	68	40	1	21	37	1.62
9848--9929	18	4.6	18	81	0	74	40	2	20	36	1.66
9871--9950	6	13.3	6	78	5	63	33	1	26	38	1.64
9848--9932	12	6.8	12	73	12	64	40	2	21	36	1.66
10295--10339	24	1.9	23	81	4	54	35	2	2	60	1.22
11975--12018	2	22.0	2	90	9	72	50	0	2	47	1.13
11975--12018	21	2.1	21	95	0	79	50	0	2	47	1.13
12179--12238	30	2.0	30	93	0	102	36	11	25	26	1.90
12181--12232	16	3.4	16	70	20	56	36	11	25	26	1.90
12464--12512	21	2.3	22	89	10	75	26	18	30	24	1.98
14385--14417	16	2.1	16	94	0	57	15	6	33	45	1.70
16141--16400	43	6.1	42	85	3	319	31	21	23	23	1.98
16483--16537	27	2.0	27	85	0	74	49	20	3	27	1.65
20260--20357	42	2.3	42	92	0	160	24	21	20	33	1.97
24803--24879	38	2.0	39	85	5	104	46	3	1	48	1.28
25356--25395	16	2.6	16	88	4	55	37	7	20	35	1.81
30287--30330	22	1.9	24	90	9	74	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31768--31825	3	19.7	3	85	3	82	62	0	0	37	0.96
31755--31827	21	3.5	21	72	12	69	57	0	0	42	0.98
32065--32837	113	6.8	113	86	4	1040	30	19	12	38	1.88
32065--32837	229	3.4	227	90	2	1137	30	19	12	38	1.88
33556--34083	93	5.7	93	93	0	851	35	20	14	28	1.92
35081--35143	1	63.0	1	74	0	54	3	9	0	87	0.65
35080--35147	7	9.6	7	80	17	70	2	11	0	85	0.71
35082--35147	6	11.5	6	82	8	68	3	10	0	86	0.68
35089--35143	28	2.0	28	92	7	94	3	9	0	87	0.66
42585--42616	15	2.1	15	94	0	55	46	6	18	28	1.73
46631--46688	26	2.2	25	85	14	73	60	0	0	39	0.97
46634--46692	23	2.4	25	80	8	68	59	0	0	40	0.97
46631--46696	27	2.5	26	83	14	82	59	0	0	40	0.98
48141--48198	3	19.7	3	82	10	75	63	0	0	36	0.94
48129--48200	21	3.4	21	72	12	67	59	0	0	40	0.97
48128--48185	24	2.4	24	88	5	82	58	0	0	41	0.98
49309--49414	50	2.3	46	82	14	121	33	1	11	53	1.47
49609--49744	59	2.5	54	85	12	165	20	16	26	36	1.93
49640--49755	59	2.0	60	94	5	209	22	16	25	35	1.95
55310--55419	24	4.6	24	85	6	125	25	17	18	39	1.92
55537--55631	43	2.2	43	98	0	181	14	10	36	37	1.81
57728--57773	18	2.6	18	89	0	65	21	47	19	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58617--58912	147	2.0	147	96	0	547	34	9	22	32	1.87
60358--60473	24	4.8	24	87	6	155	24	17	18	40	1.91
60415--60480	24	2.8	24	81	4	71	24	16	15	43	1.86
60591--60685	43	2.2	43	96	0	172	15	10	35	37	1.82
62603--62715	59	1.9	59	90	3	183	26	10	23	39	1.87
65120--65157	18	2.2	18	90	4	60	21	10	5	63	1.46
66652--66700	22	2.2	22	100	0	98	34	24	0	40	1.55
69108--69137	15	2.0	15	93	0	51	56	0	36	6	1.26
69558--69724	22	7.6	21	83	5	190	43	0	7	48	1.36
69556--69724	44	3.8	44	88	3	259	43	0	7	47	1.36
69556--69724	66	2.6	66	86	0	239	43	0	7	47	1.36
70670--70715	3	15.7	3	86	4	67	34	0	0	65	0.93
70722--70778	2	29.0	2	91	3	89	54	0	0	45	0.99
72166--72204	2	19.5	2	94	0	69	46	0	2	51	1.14
78006--78037	16	1.9	17	93	6	57	87	12	0	0	0.54
83580--84219	76	8.5	76	95	0	1144	24	19	21	34	1.97
84164--84448	46	6.2	46	87	6	382	24	23	18	33	1.96
84164--84448	97	3.1	92	84	7	346	24	23	18	33	1.96
84571--84609	3	13.0	3	88	0	60	38	0	0	61	0.96
84607--84640	2	18.0	2	88	11	54	52	0	0	47	1.00
87605--87666	3	22.3	3	77	21	64	75	0	0	24	0.80
87603--87666	8	7.8	8	86	10	85	76	0	0	23	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
87598--87666	21	3.3	21	80	11	79	76	0	1	21	0.86
88794--88841	22	2.2	22	85	7	62	72	2	0	25	0.95
88793--88835	9	4.8	9	80	11	52	74	2	0	23	0.93
88801--88834	17	1.9	18	88	5	52	73	0	0	26	0.83
88932--89016	35	2.4	34	80	16	111	49	4	3	42	1.41
88898--89064	36	4.8	35	75	19	136	46	7	4	41	1.52
89115--89184	30	2.4	30	93	6	119	52	7	4	35	1.48
88899--89211	37	8.8	36	73	20	184	46	8	4	40	1.54
89798--90281	84	5.9	83	81	6	538	25	19	25	29	1.99
89798--90281	163	2.9	162	86	4	619	25	19	25	29	1.99
89798--90295	165	3.0	165	86	3	644	24	19	25	30	1.98
90521--91110	94	6.0	94	83	10	745	23	17	24	34	1.96
90610--91230	94	6.1	106	79	12	703	23	17	24	34	1.95
90752--90905	43	3.5	42	69	16	130	21	18	24	35	1.96
90486--91215	200	3.7	200	91	3	1045	23	17	24	34	1.96
91043--91231	105	1.8	105	90	2	308	22	17	24	35	1.95
95465--95499	18	1.9	18	94	0	61	80	2	0	17	0.84
96922--96971	5	10.4	5	87	8	59	74	0	2	24	0.93
96926--96967	14	2.9	14	89	3	57	71	0	2	26	0.98
96922--96971	19	2.6	19	84	6	66	74	0	2	24	0.93
97050--97319	38	7.1	35	73	21	147	43	8	4	42	1.56
97990--98490	84	6.0	84	79	6	536	25	20	23	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
98071--98490	165	2.5	164	86	2	599	24	21	24	29	1.99
97959--98448	249	2.0	246	84	2	651	25	21	23	29	1.99
101412--101446	18	2.1	17	89	10	54	42	11	20	25	1.85
102432--102590	65	2.4	65	96	0	291	35	22	22	19	1.96
103076--103102	6	4.5	6	100	0	54	55	0	0	44	0.99
103250--103287	8	4.5	8	87	12	58	78	0	0	21	0.74
103245--103287	13	3.3	13	84	12	61	79	0	2	18	0.85
104725--104775	10	5.3	10	88	9	79	60	0	1	37	1.08
104837--105141	38	8.1	36	76	16	248	45	8	4	41	1.54
109471--109520	22	2.2	23	92	3	84	44	18	14	24	1.86
109471--109528	23	2.5	23	88	5	73	46	18	13	20	1.83
109869--109922	22	2.5	22	84	3	65	14	25	20	38	1.91
117526--117558	15	2.2	15	89	10	50	39	18	12	30	1.87
118731--118775	19	2.4	19	100	0	90	15	33	20	31	1.93
120483--120556	2	38.5	2	92	8	127	50	0	0	50	1.00
121107--121159	20	2.6	21	77	14	56	49	3	0	47	1.19
123044--123119	2	38.0	2	97	0	143	51	0	0	48	1.00
124163--124233	22	3.2	22	82	7	90	16	9	19	53	1.71
124177--124250	33	2.2	33	85	0	94	14	8	18	58	1.61
124235--124268	11	3.0	11	91	4	50	17	8	11	61	1.54
127713--127948	80	3.0	81	83	5	295	36	17	8	36	1.81
129381--129428	15	3.2	15	90	0	78	8	64	18	8	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
131127--131281	31	5.0	31	90	5	235	37	21	20	20	1.95
135276--135431	31	5.0	31	93	1	251	37	22	19	20	1.95
136357--136401	21	2.1	21	87	0	63	15	24	28	31	1.96
137273--137307	10	3.5	10	88	0	52	68	0	0	31	0.90
148802--148969	81	2.1	81	100	0	336	39	10	16	33	1.83
149334--149358	13	1.9	13	100	0	50	20	16	16	48	1.82
149376--149429	24	2.2	25	83	9	76	37	18	18	25	1.94
151711--151750	21	1.9	21	94	0	71	30	15	7	47	1.72
151745--151843	33	3.0	33	94	1	164	32	7	15	45	1.73
151829--151883	13	4.2	13	75	13	58	34	3	12	49	1.59

Tables:   1   2   3   4   5   6