genome.fa.s1279.2.7.7.80.10.50.1000.21.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: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6984689

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  21  of  29  ( 3433 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)
4855648--4855700	20	2.7	20	79	5	63	45	20	16	16	1.86
4855709--4855873	20	8.4	20	74	12	146	38	23	18	18	1.93
4855734--4855832	40	2.5	40	94	1	171	40	23	18	18	1.91
4855742--4855873	60	2.2	61	87	4	187	39	23	18	18	1.92
4855734--4855876	20	7.1	20	78	8	155	39	23	18	18	1.92
4856471--4856512	19	2.2	19	100	0	84	50	19	21	9	1.75
4856517--4856570	20	2.8	20	91	2	92	12	22	18	46	1.83
4858428--4858500	21	3.7	19	70	15	51	15	13	38	32	1.86
4858836--4858878	21	2.0	22	82	13	54	48	2	4	44	1.36
4859725--4859827	19	5.6	19	71	13	99	46	18	19	15	1.84
4859843--4859912	33	2.1	33	94	0	122	11	22	18	47	1.81
4859889--4859947	21	2.9	21	77	7	68	11	20	16	50	1.76
4860499--4860712	20	10.6	20	73	10	148	20	17	23	38	1.93
4860501--4860712	41	5.2	41	83	3	259	20	17	23	38	1.93
4860721--4860773	20	2.7	20	91	5	81	13	18	24	43	1.86
4862458--4862551	10	9.1	10	68	10	55	64	20	8	6	1.43
4862459--4862518	20	3.0	20	90	0	93	61	20	11	6	1.52
4870376--4870422	24	2.0	24	83	8	60	42	10	21	25	1.85
4870375--4870431	25	2.3	25	78	6	62	47	8	19	24	1.77
4872620--4872767	45	3.3	45	80	3	172	31	6	18	43	1.76
4872965--4873119	58	2.7	58	86	2	213	38	7	9	44	1.66
4873022--4873218	100	2.0	100	84	4	263	38	6	10	44	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4873171--4873360	58	3.3	56	78	9	170	43	5	5	45	1.50
4873124--4873361	115	2.1	116	80	10	265	42	5	6	45	1.52
4876535--4876579	20	2.3	20	88	3	65	40	24	0	35	1.56
4877660--4877726	30	2.2	30	92	5	109	31	14	8	44	1.76
4881684--4881729	20	2.3	20	88	7	67	32	10	30	26	1.90
4885581--4885624	19	2.3	19	84	7	54	40	25	0	34	1.56
4891750--4891783	17	2.0	17	88	0	50	41	5	11	41	1.66
4903948--4904766	408	2.0	407	97	0	1557	35	19	10	34	1.86
4914045--4914078	18	1.9	17	88	5	50	52	0	2	44	1.16
4914124--4914170	19	2.5	19	85	0	58	44	0	0	55	0.99
4914139--4914239	20	4.6	20	70	23	60	54	0	1	43	1.11
4914174--4914228	21	2.7	19	80	8	56	56	0	3	40	1.17
4914199--4914240	22	2.0	20	90	9	66	54	0	0	45	0.99
4914200--4914249	22	2.5	21	84	15	63	54	0	0	46	1.00
4914148--4914261	27	4.4	26	72	18	87	59	0	1	38	1.08
4926116--4926198	37	2.2	37	91	6	132	30	14	28	26	1.95
4927774--4927888	42	2.8	42	84	2	135	24	16	22	36	1.94
4927925--4928541	260	2.4	252	88	3	893	31	15	17	35	1.91
4928482--4928580	41	2.4	41	93	1	162	25	17	18	39	1.91
4928482--4928598	41	2.8	41	84	6	155	24	16	17	41	1.90
4931320--4931365	3	15.7	3	86	4	67	67	4	0	28	1.10
4931800--4931863	25	2.5	25	89	2	101	12	10	39	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4931769--4932638	250	3.4	251	86	7	1182	26	12	20	40	1.88
4933001--4933046	18	2.6	18	89	3	67	28	26	8	36	1.86
4935725--4935775	14	3.9	14	75	19	56	56	21	11	9	1.63
4935735--4935785	10	4.7	10	80	17	57	54	25	11	7	1.63
4935725--4935786	24	2.6	24	94	0	106	54	22	12	9	1.67
4935745--4935786	14	3.3	14	75	25	56	52	26	14	7	1.67
4935725--4935796	24	3.0	24	89	0	90	52	23	12	11	1.71
4935813--4935919	40	2.7	40	92	1	178	31	15	11	41	1.83
4938783--4938868	24	3.6	24	93	3	147	30	12	23	33	1.92
4950426--4950455	15	2.0	15	93	0	51	56	30	0	13	1.37
4954032--4954103	24	3.0	24	89	0	108	56	22	0	20	1.42
4955040--4955069	9	3.2	9	95	4	51	26	33	0	40	1.57
4955038--4955076	10	4.0	10	83	6	53	28	33	0	38	1.57
4955119--4955169	9	6.1	9	76	17	56	37	0	0	62	0.95
4955119--4955167	17	3.1	16	91	5	73	38	0	0	61	0.96
4958943--4959028	23	4.0	22	74	14	72	18	25	27	27	1.98
4966411--4966450	20	2.0	20	90	0	62	32	0	2	65	1.06
4967888--4967929	20	2.1	20	90	0	66	30	14	33	21	1.93
4976366--4976403	20	1.9	20	94	0	67	28	7	18	44	1.78
4976734--4976774	4	10.0	4	84	5	55	24	4	43	26	1.74
4976734--4976773	21	1.9	21	100	0	80	25	5	42	27	1.75
4977112--4977186	30	2.5	30	91	0	114	40	6	24	29	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4977615--4978157	43	12.6	43	74	12	328	25	19	7	48	1.74
4977628--4978157	128	4.1	127	73	9	362	25	18	7	48	1.74
4977687--4978157	85	5.5	84	76	12	359	25	19	7	48	1.74
4977979--4978127	45	3.4	45	85	3	178	23	16	8	51	1.73
4981292--4981394	46	2.3	43	76	14	109	41	12	13	32	1.82
4981297--4981388	46	2.0	47	85	6	125	42	11	15	30	1.83
4982594--4982919	41	7.9	40	72	11	175	35	17	17	29	1.93
4983445--4983854	42	9.8	42	84	4	487	25	20	20	33	1.97
4983492--4983854	83	4.4	83	86	2	480	25	20	20	34	1.97
4983492--4983869	125	3.0	124	91	2	580	25	20	20	33	1.97
4986307--4986349	19	2.3	18	88	11	61	41	20	37	0	1.53
4986314--4986367	19	2.7	19	83	16	58	40	20	38	0	1.53
4987113--4987445	43	7.7	43	82	5	334	33	24	16	26	1.96
4987170--4987445	86	3.2	86	88	3	378	31	24	15	27	1.96
4987197--4987442	129	1.9	129	88	3	370	32	23	15	28	1.95
4987453--4987561	20	5.6	19	77	12	96	33	28	13	24	1.94
4987530--4987568	19	2.1	19	95	0	69	38	20	10	30	1.86
4988307--4988340	12	2.8	12	90	0	50	55	29	0	14	1.40
4990783--4990818	18	2.0	18	94	0	63	58	25	0	16	1.38
4991104--4991167	20	3.5	19	72	24	57	45	21	20	12	1.84
4991104--4991202	34	2.9	34	87	0	135	41	21	21	16	1.90
4991302--4991351	25	2.0	25	100	0	100	28	8	20	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4991737--4991773	18	2.1	18	89	0	56	32	5	10	51	1.60
4991729--4991781	24	2.2	24	86	0	70	35	3	13	47	1.61
4992306--4992355	20	2.5	20	100	0	100	42	26	20	12	1.86
4992423--4992460	20	1.9	20	94	0	67	15	18	23	42	1.89
4994007--4994124	21	5.6	21	74	7	96	18	20	38	22	1.94
4994007--4994125	42	2.8	42	78	7	116	19	20	37	22	1.94
4994077--4994132	21	2.7	21	78	10	69	25	14	35	25	1.93
4996574--4996625	22	2.4	22	90	0	86	25	13	40	21	1.89
4996751--4996874	20	6.2	20	75	12	121	20	18	22	38	1.93
4996899--4996952	20	2.7	20	82	8	74	27	12	29	29	1.94
5000928--5001161	117	2.0	117	100	0	468	51	8	4	35	1.52
5006490--5006519	14	2.1	14	93	0	51	30	0	10	60	1.30
5009344--5009402	23	2.6	23	86	0	82	18	28	25	27	1.98
5009344--5009410	23	2.9	23	84	0	62	19	26	23	29	1.98
5009624--5009684	3	20.7	3	93	3	106	32	0	1	65	1.02
5016818--5016852	18	1.9	18	94	0	61	20	20	34	25	1.96
5022210--5022283	20	3.8	20	81	10	82	33	16	24	25	1.95
5022885--5022943	23	2.6	23	83	0	82	18	27	27	27	1.98
5025666--5025762	24	4.0	24	73	7	81	45	16	16	21	1.85
5027475--5027546	27	2.5	30	84	8	96	36	11	8	44	1.70
5039327--5039408	41	2.0	41	90	0	128	43	14	15	25	1.85
5039503--5039575	18	4.2	17	80	5	83	38	10	10	39	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5039503--5039571	35	2.0	35	82	5	86	37	11	11	39	1.78
5039773--5039877	3	35.0	3	100	0	210	33	0	0	66	0.92
5042287--5042333	24	2.0	23	88	12	69	55	6	4	34	1.45
5055422--5055513	29	3.1	28	77	11	85	39	8	9	42	1.69
5055607--5055691	31	2.8	32	84	10	106	38	14	11	35	1.82
5056213--5056333	61	2.0	61	90	3	190	29	19	22	28	1.98
5056967--5057048	39	2.1	40	95	2	148	42	20	7	29	1.79
5057190--5057244	26	2.2	25	93	3	92	41	9	0	49	1.34
5058735--5058961	113	2.0	113	100	0	454	43	21	6	29	1.76
5059551--5059580	15	1.9	16	93	6	53	53	0	10	36	1.35

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29