genome.fa.s8724.2.7.7.80.10.50.1000.22.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: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5289199

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

This is table  22  of  23  ( 2733 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)
5009394--5009450	21	2.7	21	83	0	69	28	17	14	40	1.88
5024541--5024637	47	2.1	47	100	0	194	54	20	2	22	1.55
5024630--5024671	21	2.0	21	95	4	77	54	23	11	9	1.66
5026473--5026847	106	3.5	106	85	3	502	24	16	19	40	1.91
5026816--5026866	20	2.5	20	96	0	93	27	19	17	35	1.94
5027808--5027953	65	2.3	64	82	8	163	31	23	17	26	1.97
5027838--5027997	65	2.5	65	84	7	193	30	22	18	28	1.97
5033813--5033891	23	3.6	22	74	5	88	26	22	25	25	2.00
5033812--5033914	43	2.4	42	78	9	118	27	25	23	24	2.00
5035450--5035493	21	2.1	21	83	8	54	9	38	13	38	1.77
5036637--5036688	19	2.7	19	96	0	95	36	26	15	21	1.93
5036657--5036799	65	2.2	66	83	6	186	30	23	19	27	1.98
5040949--5040973	2	12.5	2	100	0	50	48	0	0	52	1.00
5041022--5041100	10	7.7	10	90	5	113	24	29	26	20	1.99
5041022--5041100	21	3.8	21	89	1	124	24	29	26	20	1.99
5041022--5041100	31	2.6	30	86	9	106	24	29	26	20	1.99
5044301--5044346	12	3.8	12	79	0	56	39	6	28	26	1.81
5044452--5044516	33	2.0	33	87	0	94	7	20	16	55	1.65
5046516--5046698	31	5.8	31	70	8	129	34	16	16	32	1.92
5046496--5046589	32	3.0	31	72	12	84	34	17	18	30	1.93
5046496--5046715	63	3.5	63	80	5	259	33	16	18	31	1.93
5046510--5046715	31	6.6	31	69	8	121	32	16	19	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5056757--5056800	21	2.1	21	100	0	88	29	25	22	22	1.99
5065978--5066010	12	2.6	13	90	4	50	36	12	6	45	1.66
5073770--5073865	43	2.2	44	90	1	149	58	1	3	37	1.21
5074445--5074514	11	6.6	11	73	23	62	55	1	2	40	1.23
5074981--5075059	34	2.3	34	76	4	88	49	22	2	25	1.62
5074986--5075112	28	4.6	28	73	12	102	48	25	0	25	1.56
5075051--5075108	21	2.8	21	86	5	73	51	25	0	22	1.48
5076274--5076346	23	3.2	23	94	0	119	39	21	4	34	1.73
5076711--5076773	23	2.7	23	92	0	99	38	20	4	36	1.74
5075923--5076974	427	2.5	430	97	1	1963	38	11	7	41	1.70
5077193--5077271	39	2.0	39	95	0	140	16	15	21	46	1.83
5077549--5077585	18	2.1	18	89	0	56	51	10	5	32	1.60
5077972--5078021	25	2.0	25	96	0	91	44	22	8	26	1.80
5078302--5078364	23	2.7	23	92	0	99	38	20	4	36	1.74
5078708--5078773	25	2.6	25	80	0	87	42	13	9	34	1.76
5081243--5081585	183	1.9	183	88	3	530	34	17	13	34	1.89
5081933--5081984	23	2.3	22	90	6	77	44	19	1	34	1.62
5081943--5082005	23	2.7	23	90	0	90	38	19	4	38	1.73
5081589--5082638	431	2.4	431	95	0	1919	39	11	7	41	1.70
5082374--5082436	23	2.7	23	92	0	99	38	20	4	36	1.74
5084027--5084070	9	4.6	9	78	15	52	25	34	2	38	1.68
5084030--5084121	6	15.3	6	81	0	76	21	32	6	39	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5085586--5086553	198	4.9	198	96	0	1785	30	17	15	36	1.91
5085586--5086553	395	2.4	396	96	0	1812	30	17	15	36	1.91
5086672--5086720	19	2.6	19	93	0	80	57	10	2	30	1.43
5088512--5088575	33	1.9	33	90	0	101	23	48	0	28	1.51
5088610--5088653	21	2.1	21	91	0	70	15	31	11	40	1.83
5090858--5090900	20	2.3	18	85	14	61	20	16	11	51	1.75
5090863--5090921	20	3.0	19	80	9	73	20	15	10	54	1.70
5090830--5091304	181	2.6	183	89	1	715	27	17	13	41	1.87
5091373--5091863	229	2.1	228	96	1	903	39	8	7	44	1.63
5094608--5094691	37	2.3	37	93	0	141	39	15	15	29	1.88
5095504--5095620	48	2.6	45	82	6	130	30	18	24	25	1.98
5095985--5096044	21	2.9	21	89	0	84	6	33	20	40	1.78
5099405--5099443	21	1.9	20	94	5	69	10	10	23	56	1.63
5099439--5099535	47	2.1	47	98	0	185	22	2	19	55	1.53
5102379--5102443	21	3.1	21	66	16	53	50	13	20	15	1.77
5104859--5105015	41	3.8	42	73	12	110	31	17	18	32	1.94
5111183--5111258	39	1.9	39	81	5	91	52	0	11	35	1.38
5124634--5124679	15	3.1	15	96	0	83	43	6	30	19	1.76
5129559--5129653	20	4.5	21	70	17	63	35	13	24	26	1.93
5130061--5130205	26	6.0	26	71	18	125	45	11	24	18	1.82
5130113--5130154	17	2.4	18	80	4	50	52	7	19	21	1.69
5130062--5130204	72	2.0	72	94	0	250	46	9	25	18	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5130121--5130236	46	2.6	45	89	6	180	45	10	23	20	1.81
5130167--5130205	13	3.0	13	78	14	53	43	12	28	15	1.83
5130603--5130764	81	2.0	81	86	2	227	35	10	22	30	1.88
5130604--5130789	81	2.3	81	84	3	214	36	10	22	30	1.87
5131774--5131821	17	2.8	16	80	20	53	27	4	2	66	1.21
5134154--5134199	24	1.9	24	100	0	92	45	8	8	36	1.66
5134681--5134726	24	1.9	24	100	0	92	45	8	8	36	1.66
5137716--5137755	18	2.3	18	86	4	55	12	0	10	77	0.99
5140596--5140677	21	3.9	21	90	3	103	25	23	19	31	1.98
5140650--5140727	21	3.7	21	79	6	86	25	29	19	25	1.98
5143563--5143790	101	2.2	101	79	5	246	26	20	24	28	1.99
5145698--5145751	23	2.3	23	87	0	90	37	22	25	14	1.93
5145760--5145851	36	2.6	36	92	1	159	34	19	23	21	1.96
5146131--5146166	2	18.0	2	100	0	72	50	0	0	50	1.00
5148925--5148959	17	2.1	17	100	0	70	22	0	0	77	0.78
5149602--5149648	25	2.0	25	84	12	64	42	0	6	51	1.27
5149826--5149888	30	2.1	30	90	0	99	33	15	12	38	1.86
5150003--5150092	45	2.0	45	86	0	126	34	17	16	31	1.93
5152101--5152154	24	2.4	24	90	9	87	66	0	27	5	1.13
5152372--5152416	18	2.6	18	85	3	56	44	2	4	48	1.35
5153259--5153396	5	27.6	5	100	0	276	40	0	19	39	1.52
5153401--5153447	14	3.4	14	82	5	60	31	2	0	65	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5153401--5153458	18	3.1	18	80	5	62	32	3	0	63	1.11
5154504--5154552	22	2.2	22	100	0	98	34	0	4	61	1.15
5154890--5155026	61	2.3	60	78	15	140	51	0	4	43	1.27
5155038--5155155	33	3.9	32	74	16	133	52	5	4	38	1.43
5155055--5155222	48	3.2	52	80	14	179	54	5	3	36	1.41
5155100--5155213	48	2.4	48	93	0	192	55	4	3	36	1.37
5159921--5159982	31	2.0	31	81	6	72	58	14	1	25	1.46
5157322--5160067	909	3.0	914	95	2	4869	37	19	9	33	1.84
5163944--5163989	14	3.1	14	87	6	56	15	15	17	52	1.76
5164243--5164292	23	2.2	23	92	0	82	12	4	18	66	1.39
5176534--5176571	2	19.0	2	100	0	76	50	0	0	50	1.00
5176599--5176752	83	1.9	83	82	5	195	29	13	19	37	1.90
5185125--5185157	16	2.1	16	94	0	57	60	24	9	6	1.49
5185121--5185178	26	2.2	26	90	0	89	58	20	8	12	1.59
5186274--5186313	14	3.1	14	73	26	52	50	27	15	7	1.70
5186265--5186313	24	2.0	24	96	0	89	51	24	16	8	1.71
5186265--5186323	24	2.5	24	88	0	73	49	25	15	10	1.76
5191212--5191432	110	2.0	110	99	0	433	38	6	23	32	1.80
5191663--5191700	20	1.9	20	94	0	67	34	15	34	15	1.90
5191684--5191737	25	2.1	26	93	3	92	29	14	33	22	1.94
5191946--5191991	20	2.3	20	85	3	58	34	15	32	17	1.91
5191967--5192019	25	2.1	25	89	6	81	30	15	32	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5192475--5192663	45	4.5	43	76	16	198	31	11	26	30	1.91
5193349--5193457	37	2.9	37	90	5	168	43	2	9	44	1.50
5201545--5201609	23	2.8	23	83	0	85	21	21	21	35	1.96
5209776--5209814	20	2.0	20	89	0	60	33	25	15	25	1.95
5209796--5210143	85	4.1	84	91	2	543	33	21	19	25	1.97
5210743--5210784	18	2.3	18	87	4	57	38	4	4	52	1.44
5210778--5210848	26	2.6	27	88	8	99	42	1	8	47	1.42
5210810--5210878	36	1.9	35	94	2	120	43	2	8	44	1.50
5210810--5210905	36	2.7	35	85	9	115	45	2	8	43	1.45
5210938--5211013	6	12.3	6	84	13	93	21	1	0	77	0.84

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