genome.fa.s3844.2.7.7.80.10.50.1000.1.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: VEPZ01003844.1 Hibiscus syriacus cultivar Beakdansim tig00008242_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  412420

Tables:   1   2   

This is table  1  of  2  ( 145 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)
1081--1107	2	13.5	2	100	0	54	51	0	0	48	1.00
1179--1208	13	2.3	13	94	0	51	43	6	20	30	1.77
1135--1368	98	2.4	95	80	7	238	29	16	20	32	1.95
3825--3909	44	1.9	44	87	0	125	42	9	21	27	1.83
18104--18137	13	2.6	13	90	0	50	47	20	17	14	1.83
28096--28226	47	2.7	49	79	10	137	29	21	6	41	1.79
36889--36992	29	3.6	29	97	0	199	16	31	34	17	1.92
37632--37675	21	2.1	21	91	0	70	29	0	15	54	1.42
37652--37714	28	2.2	30	91	5	103	31	0	11	57	1.34
38220--38264	21	2.2	21	84	4	56	35	0	8	55	1.31
38434--38477	20	2.2	20	84	8	54	45	9	6	38	1.63
38524--38582	26	2.3	25	75	18	66	47	8	3	40	1.51
41425--41591	35	4.4	35	68	21	113	41	1	10	46	1.48
41471--41509	19	2.1	19	100	0	78	43	5	5	46	1.48
41466--41649	98	1.9	98	86	6	266	43	2	9	44	1.51
41408--42042	124	5.2	124	95	1	1110	43	2	9	44	1.48
41580--41923	150	2.3	146	84	10	421	44	2	9	43	1.51
41796--41829	8	4.2	8	85	14	52	41	0	8	50	1.34
41490--42056	26	22.9	26	74	12	399	43	2	9	44	1.49
41490--42056	12	41.6	14	69	18	185	43	2	9	44	1.49
42265--42297	17	1.9	17	93	0	57	36	6	12	45	1.66
42211--42290	24	3.3	23	71	21	67	38	3	8	48	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44435--44465	15	2.1	14	94	5	53	54	6	0	38	1.26
44440--44486	16	3.0	16	84	9	53	59	10	0	29	1.31
44527--44608	34	2.5	34	83	13	93	48	13	0	37	1.42
44648--44780	45	3.0	45	80	14	136	48	12	0	39	1.40
44720--44808	41	2.2	40	78	8	90	46	10	1	42	1.45
45314--45417	29	3.6	29	90	0	154	23	31	28	16	1.96
45424--45462	9	4.1	9	81	12	51	12	17	30	38	1.88
45424--45462	20	2.0	20	94	0	69	12	17	30	38	1.88
47124--47175	22	2.4	22	96	0	95	40	5	15	38	1.71
51435--51475	19	2.2	18	91	4	64	43	0	17	39	1.49
58746--58793	20	2.4	20	100	0	96	31	10	12	45	1.76
66929--67005	30	2.6	30	97	2	147	33	23	5	37	1.77
67367--67415	23	2.2	22	79	17	57	16	16	0	67	1.24
73645--73697	27	2.0	27	100	0	106	15	30	7	47	1.73
77906--77958	23	2.5	22	82	11	65	15	18	0	66	1.26
87350--87385	13	2.8	13	95	4	65	19	16	0	63	1.30
88809--88885	34	2.3	34	90	0	118	15	12	31	40	1.85
90182--90246	21	3.0	21	91	4	103	35	21	12	30	1.90
106645--106683	20	2.0	20	85	10	53	33	0	17	48	1.48
114549--114697	42	3.5	41	77	5	145	34	18	16	30	1.93
117333--117373	5	8.2	5	88	0	64	2	17	41	39	1.62
118458--118554	50	1.9	50	91	0	158	36	24	18	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
121927--121958	16	2.0	16	100	0	64	37	12	18	31	1.88
123045--123148	50	2.1	50	90	0	163	35	23	24	17	1.95
123590--123653	23	2.8	23	92	0	101	37	35	0	26	1.57
126926--126983	2	29.0	2	100	0	116	50	50	0	0	1.00
129395--129517	64	1.9	64	83	0	156	36	20	16	26	1.93
130201--130260	23	2.6	23	89	0	84	20	26	26	26	1.99
130201--130268	23	3.0	23	86	0	73	20	25	25	29	1.99
139273--139395	64	1.9	64	89	0	192	36	21	17	25	1.94
139273--139436	64	2.6	64	81	7	190	34	21	18	25	1.96
140078--140131	23	2.3	23	90	0	81	20	29	24	25	1.99
140077--140137	23	2.6	22	82	10	77	21	27	24	26	1.99
149114--149180	20	3.3	20	95	0	125	58	0	4	37	1.19
150328--150403	31	2.5	31	86	0	89	38	14	14	32	1.87
151475--151530	21	2.6	22	80	8	71	44	1	0	53	1.11
155219--155281	31	2.0	31	100	0	126	34	28	0	36	1.58
162421--162466	17	2.7	17	83	9	58	54	0	0	45	0.99
162429--162489	17	3.5	17	77	11	61	54	0	3	42	1.17
163225--163332	42	2.6	42	85	8	143	46	18	14	20	1.84
165448--165805	131	2.7	131	83	0	448	33	10	16	39	1.83
168038--168063	13	2.0	13	100	0	52	61	0	7	30	1.24
170358--170416	20	2.8	21	84	10	75	18	25	35	20	1.95
170334--170416	21	3.9	21	76	9	87	16	25	36	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
182799--182859	14	4.4	14	91	0	104	39	1	37	21	1.63
183172--183215	20	2.1	21	87	4	63	45	9	9	36	1.68
187300--187332	14	2.4	14	94	0	57	42	0	36	21	1.53
187578--187621	20	2.1	21	87	4	63	45	11	9	34	1.72
197474--197516	21	2.1	20	91	4	68	41	6	13	37	1.72
201163--201205	16	2.8	16	85	3	61	13	13	4	67	1.38
209155--209321	89	1.9	89	94	0	298	34	12	7	45	1.71
213301--213413	41	2.8	41	83	2	129	32	17	17	31	1.94
213381--213474	20	4.6	20	78	13	93	31	13	20	34	1.92
213840--213879	15	2.7	15	84	0	53	37	25	5	32	1.77
217187--217255	33	2.1	33	86	5	95	33	1	34	30	1.67
217226--217338	36	3.2	36	91	1	165	28	3	35	32	1.74
221595--221663	33	2.1	33	86	5	95	33	1	34	30	1.67
221634--221746	36	3.2	36	91	1	165	28	3	35	32	1.74
226566--226601	17	2.1	17	89	0	54	38	0	27	33	1.57
232258--232329	26	2.8	26	82	0	90	25	13	25	36	1.93
236636--236668	2	16.5	2	93	0	57	45	0	3	51	1.16
244714--244866	77	2.0	79	83	5	195	42	7	5	43	1.57
246574--246641	31	2.2	31	100	0	136	26	38	10	25	1.88
247277--247330	17	3.2	16	75	15	56	35	1	1	61	1.18
247252--247365	22	5.3	20	71	18	70	38	2	0	57	1.18
247744--247793	21	2.5	20	77	6	55	16	6	8	70	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
253529--253602	35	2.1	36	94	2	132	25	37	4	32	1.75
253953--253993	20	2.1	20	90	4	66	80	4	12	2	0.97
254021--254079	15	3.9	15	70	14	50	74	1	15	8	1.13
254022--254086	30	2.1	30	83	13	80	70	3	16	9	1.26
258021--258083	13	5.2	12	76	16	60	23	42	1	31	1.64
258023--258102	35	2.3	35	95	0	142	25	41	3	30	1.73
268550--268654	36	2.9	36	90	1	158	29	4	34	31	1.78
276114--276214	49	2.2	47	83	13	122	49	14	1	33	1.55
280035--280068	12	2.8	12	90	0	59	2	11	5	79	1.02
280024--280091	12	5.7	12	78	5	57	1	5	8	83	0.85
280061--280089	15	1.9	15	100	0	58	0	0	10	89	0.48
282639--282700	8	8.0	8	76	7	65	0	6	11	82	0.84
282628--282698	15	4.3	18	78	20	68	0	8	11	80	0.91
282647--282676	13	2.3	13	100	0	60	0	13	6	80	0.91
282628--282664	20	1.9	20	88	5	58	0	10	10	78	0.97
282628--282691	31	2.1	30	86	11	87	0	9	10	79	0.93
304077--304115	19	2.1	19	85	0	51	74	0	17	7	1.05
319923--319975	1	53.0	1	82	0	52	0	3	7	88	0.61
319923--319975	12	4.6	12	86	9	74	0	3	7	88	0.61
319912--319967	24	2.3	23	84	9	76	0	7	10	82	0.85
325657--325713	11	5.0	11	80	19	64	26	1	36	35	1.67
325657--325713	24	2.5	22	79	20	64	26	1	36	35	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
325657--325736	35	2.2	37	88	4	119	27	2	37	32	1.70
330142--330221	35	2.2	37	88	4	119	26	5	37	31	1.78
333437--333480	22	2.0	22	95	0	79	25	4	38	31	1.76
338241--338278	2	19.0	2	100	0	76	50	0	0	50	1.00
344006--344041	12	3.2	12	85	14	51	80	0	13	5	0.88
345620--345657	19	2.1	19	85	9	53	39	18	5	36	1.73
348676--348734	22	2.6	22	78	10	66	77	1	18	1	0.93
348675--348738	19	3.4	20	81	14	66	78	1	18	1	0.92
348675--348738	11	5.7	11	77	15	53	78	1	18	1	0.92
355032--355086	24	2.3	25	81	6	60	29	21	16	32	1.95

Tables:   1   2