genome.fa.s9611.2.7.7.80.10.50.1000.21.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   

This is table  21  of  27  ( 3214 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)
5331127--5331203	25	3.1	25	71	14	77	31	20	23	24	1.98
5331534--5331583	25	2.0	25	84	7	66	40	4	12	44	1.60
5342719--5342763	18	2.6	17	82	3	54	35	2	28	33	1.70
5343103--5343637	251	2.2	244	88	6	790	40	18	12	28	1.87
5344555--5344733	60	3.0	59	79	4	189	42	5	21	30	1.76
5364031--5364086	2	28.0	2	100	0	112	50	0	0	50	1.00
5364106--5364157	6	8.7	6	73	0	50	36	19	1	42	1.62
5364105--5364139	12	2.9	12	91	0	61	40	22	0	37	1.55
5364500--5364617	45	2.6	46	77	4	123	38	23	8	28	1.84
5370376--5370432	7	8.3	7	74	3	53	36	24	22	15	1.94
5370434--5370471	17	2.2	17	90	0	58	31	15	18	34	1.92
5370738--5370785	23	2.1	23	88	0	69	35	12	18	33	1.89
5371167--5371218	23	2.3	22	90	6	77	44	19	1	34	1.62
5371177--5371239	23	2.7	23	90	0	90	38	19	6	36	1.77
5371643--5371768	39	3.2	39	97	0	234	17	13	20	48	1.81
5372026--5372062	18	2.1	18	89	0	56	51	10	5	32	1.60
5372311--5372361	25	2.0	25	92	0	84	39	19	7	33	1.81
5372630--5372681	23	2.3	22	90	6	77	44	19	1	34	1.62
5372640--5372702	23	2.7	23	90	0	90	38	19	6	36	1.77
5373061--5373112	23	2.3	22	90	6	77	44	19	1	34	1.62
5373071--5373133	23	2.7	23	90	0	90	38	19	6	36	1.77
5372393--5373232	431	1.9	431	98	0	1635	39	12	8	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5376262--5376304	22	1.9	23	90	4	70	44	13	11	30	1.80
5376300--5376994	183	3.8	183	96	0	1241	33	16	14	36	1.89
5378194--5378268	3	25.0	3	79	0	78	25	34	5	34	1.79
5379742--5380517	199	3.9	199	99	0	1516	30	15	16	36	1.91
5380638--5380684	19	2.6	19	90	6	71	57	10	2	29	1.44
5382475--5382540	33	2.0	33	90	0	105	22	48	0	28	1.51
5382574--5382638	21	3.1	21	80	6	69	15	29	15	40	1.88
5384865--5384907	20	2.3	18	82	17	61	18	16	11	53	1.72
5384870--5384916	20	2.3	20	89	10	78	17	17	10	55	1.69
5386260--5386334	29	2.6	29	85	4	89	36	8	0	56	1.29
5387114--5387322	29	7.3	30	75	11	152	55	2	6	35	1.40
5387113--5387351	113	2.1	112	80	6	259	55	2	5	35	1.39
5406577--5406682	52	2.0	52	96	0	194	40	33	8	17	1.80
5407905--5407955	23	2.2	23	89	0	75	37	7	19	35	1.81
5407983--5408152	23	7.6	23	73	11	102	45	9	11	33	1.73
5407877--5408129	87	2.9	87	90	0	389	43	10	13	32	1.78
5408187--5408237	23	2.2	23	96	0	93	33	9	23	33	1.88
5407992--5408237	110	2.3	109	86	1	359	42	10	14	32	1.80
5408733--5408788	24	2.4	23	80	16	71	55	3	0	41	1.17
5408788--5409224	200	2.2	198	84	4	540	31	13	13	41	1.84
5412848--5412902	27	2.0	27	96	0	101	25	21	18	34	1.96
5412911--5412996	20	4.2	20	84	8	120	30	29	17	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5412911--5413026	61	1.9	61	87	0	169	31	25	17	25	1.97
5413170--5413242	22	3.3	22	82	0	101	20	42	15	21	1.89
5413471--5413534	21	3.1	21	75	4	76	17	18	26	37	1.93
5413475--5413618	41	3.5	41	86	7	147	20	20	21	37	1.94
5413523--5413656	22	6.4	22	72	10	111	20	18	23	37	1.94
5413523--5413625	41	2.5	41	95	1	181	21	19	21	37	1.94
5414274--5414305	5	6.6	5	96	3	57	0	40	21	37	1.54
5414302--5414352	6	9.2	6	89	6	65	0	15	50	33	1.44
5414484--5414540	21	2.7	21	88	0	87	29	24	17	28	1.97
5415035--5415157	20	6.2	20	79	1	113	17	17	21	43	1.89
5415124--5415167	20	2.2	20	91	0	70	11	13	20	54	1.69
5417058--5417128	20	3.5	20	88	0	106	36	23	22	16	1.94
5417804--5417879	21	3.7	20	70	7	53	23	32	21	22	1.98
5419203--5419256	28	2.0	27	81	3	63	31	1	18	48	1.59
5419288--5419324	14	2.6	14	100	0	74	29	0	21	48	1.50
5419288--5419403	27	3.9	27	72	19	88	29	1	18	50	1.56
5419321--5419432	36	3.4	36	72	21	134	26	3	15	54	1.57
5419302--5419455	63	2.4	63	92	4	254	29	2	16	51	1.57
5419521--5419584	20	3.2	20	88	0	101	45	21	18	14	1.85
5419623--5419688	20	3.3	20	86	0	87	24	21	21	33	1.97
5419715--5420136	140	3.0	140	96	0	792	44	15	12	27	1.83
5422252--5422288	14	2.6	14	91	4	56	5	21	21	51	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5423403--5423457	20	2.8	20	94	0	92	34	20	23	21	1.97
5423483--5423519	19	1.9	19	88	0	56	24	16	24	35	1.95
5424310--5424357	14	3.7	14	73	21	59	16	12	14	56	1.68
5424310--5424356	24	2.0	24	95	0	85	17	12	12	57	1.65
5431758--5431915	21	7.8	20	70	7	77	37	24	17	19	1.93
5431883--5432292	20	20.5	20	84	5	488	35	25	18	20	1.95
5432969--5433015	24	2.0	24	87	8	69	25	14	21	38	1.92
5433189--5433213	12	2.1	12	100	0	50	72	0	28	0	0.86
5435496--5435769	19	15.4	19	81	15	345	47	17	21	13	1.83
5435496--5435791	33	8.5	35	83	12	273	46	17	21	14	1.83
5435524--5435791	109	2.5	105	91	6	450	46	16	22	14	1.83
5435524--5435791	52	5.0	52	92	4	446	46	16	22	14	1.83
5435496--5435791	71	4.2	70	79	12	324	46	17	21	14	1.83
5435798--5435880	20	4.6	19	79	15	104	14	22	18	44	1.86
5435987--5436023	14	2.6	14	91	0	65	45	21	0	32	1.52
5437973--5438029	14	3.7	14	77	20	60	45	22	21	10	1.82
5437954--5438046	33	2.8	33	95	0	168	47	21	20	10	1.80
5437917--5438051	19	7.6	19	76	16	128	45	23	19	11	1.82
5438047--5438175	19	7.3	19	75	17	125	8	17	28	45	1.77
5438047--5438138	33	2.8	33	93	3	150	7	18	28	45	1.76
5438219--5438597	92	4.1	93	98	0	735	46	18	12	22	1.83
5438219--5438597	185	2.0	185	98	1	733	46	18	12	22	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5440304--5440393	14	5.7	14	74	23	81	42	23	25	8	1.83
5440296--5440410	33	3.5	33	95	0	212	45	20	24	9	1.81
5440303--5440415	19	6.8	18	72	23	88	43	22	24	9	1.83
5440427--5440481	14	3.6	14	73	21	56	9	25	23	41	1.83
5440411--5440481	33	2.2	33	94	0	124	8	22	25	43	1.81
5440422--5440503	33	2.5	33	89	2	119	9	25	21	42	1.84
5440434--5440522	20	4.8	20	72	19	75	12	24	19	43	1.85
5440602--5440672	33	2.2	33	92	0	115	47	18	22	11	1.80
5440854--5440908	22	2.5	22	81	0	74	20	16	40	23	1.91
5441054--5441246	20	9.6	20	82	5	219	19	19	25	35	1.95
5441054--5441246	60	3.2	60	83	0	251	19	19	25	35	1.95
5443558--5443598	14	2.9	15	75	14	50	58	0	0	41	0.98
5444039--5444090	22	2.4	22	100	0	104	17	40	23	19	1.91
5449526--5449585	21	2.8	22	82	5	86	23	31	26	18	1.97
5451486--5451576	45	2.0	45	97	0	173	40	4	18	36	1.71
5455273--5455361	36	2.4	37	75	21	96	50	3	0	46	1.18
5489610--5489657	16	3.1	16	78	3	53	22	4	4	68	1.24
5491398--5491438	18	2.3	18	91	4	66	65	0	4	29	1.13
5501883--5501958	32	2.4	31	82	8	89	39	32	11	15	1.84
5507103--5507690	304	2.0	288	94	5	1032	31	17	16	34	1.92
5508129--5508204	35	2.2	35	90	0	116	36	1	22	39	1.63
5540864--5540897	5	6.8	5	93	0	59	79	2	17	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5542998--5543040	19	2.3	19	84	8	52	53	6	0	39	1.28
5543841--5543874	17	1.9	18	88	5	52	64	5	0	29	1.17
5544552--5544669	59	2.0	59	100	0	236	20	16	23	38	1.92
5552574--5552634	22	2.8	21	75	22	54	36	1	1	60	1.16
5552671--5552705	2	17.5	2	100	0	70	51	0	0	48	1.00
5559795--5559833	20	2.0	20	94	0	69	10	28	33	28	1.90
5566747--5566776	15	2.0	15	100	0	60	13	26	33	26	1.93
5570428--5570466	2	19.5	2	100	0	78	48	0	0	51	1.00
5580561--5580623	32	2.0	32	100	0	126	28	22	6	42	1.78
5580571--5580625	16	3.4	16	68	26	53	30	23	3	41	1.72

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