genome.fa.s8981.2.7.7.80.10.50.1000.1.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: VEPZ01008981.1 Hibiscus syriacus cultivar Beakdansim tig00112343_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1473337

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 776 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)
9--3578	7	518.6	7	94	4	6169	29	42	14	13	1.84
3416--4375	7	138.1	7	92	5	1344	18	57	24	0	1.42
4384--4449	19	3.5	19	87	0	96	39	30	9	21	1.84
4384--4479	10	9.9	10	74	10	74	39	29	7	23	1.82
8372--8498	3	43.7	3	87	4	181	64	0	1	33	1.03
8740--9426	119	5.9	119	95	3	1200	27	21	13	37	1.91
10051--10410	52	6.9	52	95	1	650	37	23	15	24	1.93
11392--11475	9	9.6	9	75	17	70	0	20	0	79	0.73
11378--11475	36	2.8	33	77	13	99	0	20	0	79	0.73
11378--11469	6	14.7	6	73	22	66	0	19	0	80	0.71
11382--11474	40	2.3	39	82	12	116	0	20	0	79	0.73
11390--11454	5	13.8	5	72	18	59	0	20	0	80	0.72
24251--24382	3	44.7	3	86	4	180	62	0	1	35	1.04
31757--31822	34	1.9	33	82	11	80	37	9	0	53	1.33
32563--32637	38	2.0	38	85	10	102	48	1	4	46	1.29
38228--38346	50	2.4	50	85	4	159	21	26	27	23	1.99
38548--38594	23	2.0	24	88	12	71	29	0	2	68	1.02
38549--38601	24	2.2	24	80	6	63	32	0	1	66	1.03
38578--38610	16	1.9	17	88	11	50	36	0	3	60	1.12
38571--38612	17	2.4	19	80	15	54	33	0	2	64	1.07
38573--38628	25	2.2	26	83	3	69	32	0	1	66	1.03
40908--40991	34	2.5	33	83	12	100	21	1	14	63	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40908--40957	24	2.1	23	81	3	55	24	0	10	66	1.22
41856--41988	64	2.1	64	81	2	151	28	18	25	27	1.98
42690--42744	18	2.8	19	84	15	69	47	3	1	47	1.30
42773--42797	12	2.1	12	100	0	50	44	8	8	40	1.63
42947--42990	19	2.3	20	77	22	58	43	0	25	31	1.55
42953--42991	19	2.2	18	90	9	62	41	0	28	30	1.57
42963--43036	19	3.8	19	72	10	69	41	0	29	28	1.56
43223--44988	4	451.2	4	94	4	3171	24	0	25	49	1.51
45410--45467	21	2.7	22	78	7	66	50	29	0	20	1.49
45440--45470	14	2.2	14	94	0	53	54	29	0	16	1.42
45838--45882	23	1.9	24	90	4	74	48	6	2	42	1.41
46110--46158	24	2.1	23	96	3	89	42	2	8	46	1.45
45604--46173	296	1.9	297	87	5	839	45	9	6	38	1.63
46118--46171	24	2.2	24	83	6	65	48	3	3	44	1.38
46113--46159	2	22.0	2	83	12	58	44	2	6	46	1.40
46460--46509	23	2.1	24	92	3	84	48	4	2	46	1.32
46762--46838	16	4.9	16	88	1	111	40	10	25	23	1.86
46920--46970	22	2.3	22	96	0	93	9	21	35	33	1.86
48219--48269	19	2.7	19	90	0	84	33	17	29	19	1.95
55124--55158	19	1.9	18	88	11	54	34	17	31	17	1.93
55779--55838	22	2.7	22	92	0	102	16	25	31	26	1.96
57827--57865	17	2.4	17	95	4	71	43	0	5	51	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60778--60829	5	9.5	6	84	12	60	11	1	15	71	1.23
60778--60829	17	3.2	17	83	5	72	11	1	15	71	1.23
70020--70112	39	2.3	40	83	5	118	35	23	10	30	1.89
70020--70112	19	4.7	20	84	5	118	35	23	10	30	1.89
73362--73397	18	2.0	18	88	0	54	55	22	2	19	1.56
75267--75360	21	4.6	21	82	5	120	23	21	34	21	1.97
75267--75358	40	2.2	42	92	3	152	22	21	34	20	1.96
75700--75839	63	2.2	64	82	5	160	32	36	10	20	1.87
75725--75840	21	5.5	21	68	6	74	34	35	10	19	1.86
77400--77452	20	2.6	21	85	8	74	47	15	18	18	1.83
77843--77893	22	2.3	21	87	9	75	17	15	43	23	1.88
86788--86813	6	4.3	6	100	0	52	15	30	19	34	1.93
86818--86842	2	12.5	2	100	0	50	48	0	0	52	1.00
89240--89330	20	4.9	20	67	20	63	32	6	15	45	1.72
89239--89386	53	2.8	52	94	3	262	32	6	13	47	1.67
89345--89384	20	2.0	20	95	0	71	37	5	12	45	1.64
92097--92258	39	4.2	39	90	0	252	44	22	11	20	1.84
92097--92258	78	2.1	78	95	0	288	44	22	11	20	1.84
94811--94836	3	8.7	3	100	0	52	0	0	30	69	0.89
99871--99911	16	2.5	17	88	8	66	17	17	34	31	1.93
99871--99916	16	2.8	16	90	3	65	21	15	32	30	1.94
99984--100028	21	2.1	21	91	0	72	20	33	2	44	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
99984--100037	21	2.6	21	85	5	56	22	33	3	40	1.71
100408--100449	21	2.0	21	90	0	66	14	42	26	16	1.86
101727--101774	19	2.5	20	82	3	62	54	6	10	29	1.59
103041--103082	21	2.0	21	90	0	66	14	42	26	16	1.86
104361--104408	19	2.5	20	82	3	62	54	6	10	29	1.59
105676--105735	20	2.9	21	82	5	86	20	38	28	13	1.90
105686--105735	21	2.5	20	83	6	64	20	42	24	14	1.88
105891--105923	13	2.5	13	100	0	66	51	18	9	21	1.73
116677--116717	21	1.9	22	90	5	66	60	0	14	24	1.34
116925--117384	229	2.0	229	99	0	902	45	6	18	30	1.73
117818--118040	105	2.1	104	83	0	266	21	15	22	39	1.92
121657--121701	22	2.0	22	82	4	54	31	31	26	11	1.91
122967--123010	20	2.2	20	84	8	54	38	2	20	38	1.65
123090--123287	105	1.9	105	82	0	252	23	14	23	38	1.91
124655--124714	21	2.8	21	80	10	68	25	36	25	13	1.92
126567--126604	17	2.3	17	86	4	51	15	5	26	52	1.64
138728--138767	2	20.0	2	100	0	80	50	0	0	50	1.00
139692--139739	25	1.9	24	83	8	60	41	22	8	27	1.82
146272--146461	102	1.9	102	83	2	247	39	22	11	26	1.88
146272--146486	102	2.1	102	79	1	234	39	20	12	27	1.88
155167--155217	23	2.3	23	86	6	79	17	41	21	19	1.91
155199--155238	21	1.9	21	89	0	62	25	40	25	10	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
162634--162686	2	26.5	2	100	0	106	49	0	0	50	1.00
163879--164223	110	3.1	110	89	0	521	34	22	16	26	1.95
166243--166278	19	1.9	18	88	5	54	22	5	0	72	1.05
166299--166329	3	10.3	3	100	0	62	32	0	0	67	0.91
170383--170477	43	2.2	43	94	0	163	37	35	10	15	1.82
170593--170710	24	5.0	24	83	5	141	41	19	14	24	1.89
171817--171851	18	1.9	18	88	0	52	31	14	0	54	1.40
173155--173197	14	3.0	14	86	3	50	18	20	44	16	1.87
173194--173229	13	2.8	13	91	0	54	16	16	47	19	1.83
173175--173216	18	2.3	19	87	4	59	9	16	52	21	1.72
174238--174269	3	10.7	3	100	0	64	31	0	0	68	0.90
174349--174406	30	1.9	30	86	6	82	22	5	0	72	1.04
174355--174399	24	1.9	23	86	13	65	20	4	0	75	0.97
174451--174485	9	3.9	9	92	0	61	20	2	0	77	0.90
174453--174499	18	2.6	18	89	3	67	17	8	0	74	1.05
174460--174507	19	2.5	19	76	13	53	14	8	0	77	0.99
174949--175003	16	3.3	16	72	7	56	40	5	0	54	1.23
174947--175007	17	3.6	18	72	18	67	42	4	0	52	1.23
175005--175256	36	6.8	35	77	13	181	44	6	4	44	1.50
175005--175253	37	6.7	37	81	9	276	43	6	4	44	1.51
175829--176288	84	5.5	83	79	5	462	25	20	23	30	1.98
175810--176288	165	2.9	164	81	4	528	24	19	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
175829--176288	249	1.8	249	88	1	699	25	20	23	30	1.98
176662--176694	13	2.3	15	85	15	52	84	0	6	9	0.76
176663--176695	14	2.4	14	95	5	59	81	0	6	12	0.85
176744--176801	4	15.0	4	73	20	52	74	1	3	20	1.06
176742--176800	18	3.2	18	79	13	66	76	1	3	18	1.02
178089--178131	2	22.5	2	86	9	54	53	4	0	41	1.21
178088--178142	28	2.0	28	92	0	92	52	9	1	36	1.44
178753--179120	164	2.2	163	82	7	395	25	20	24	29	1.99
178796--179177	164	2.3	168	85	5	490	24	20	24	30	1.99
178882--179231	164	2.1	164	84	4	461	24	20	24	30	1.99

Tables:   1   2   3   4   5   6   7