genome.fa.s7923.2.7.7.80.10.50.1000.26.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   30   31   32   
          33   34   35   36   37   38   39   40   

This is table  26  of  40  ( 4704 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)
5183817--5183875	23	2.6	23	91	0	91	37	5	18	38	1.73
5182788--5184650	416	4.5	417	95	2	3231	41	8	11	38	1.72
5184230--5184302	23	3.2	23	92	0	119	34	5	21	38	1.77
5182788--5184650	829	2.2	831	94	3	3232	41	8	11	38	1.72
5185770--5185821	26	2.0	26	85	3	70	32	3	5	57	1.40
5185772--5185828	26	2.2	26	81	6	62	31	5	3	59	1.36
5186420--5186467	22	2.2	22	96	0	87	31	20	16	31	1.95
5187627--5187673	22	2.1	22	96	0	85	19	23	14	42	1.88
5205380--5205503	62	2.0	59	80	11	135	42	3	7	46	1.47
5214693--5214736	16	2.9	15	76	6	52	34	13	25	27	1.93
5227743--5227769	13	2.1	13	100	0	54	25	22	29	22	1.99
5234983--5235053	35	2.0	36	83	5	92	49	2	1	46	1.25
5236692--5236753	31	2.0	31	96	0	115	20	6	33	38	1.79
5237270--5237370	41	2.5	41	83	1	132	37	14	14	32	1.88
5238763--5238888	42	3.0	41	82	10	141	31	10	21	36	1.87
5239105--5239198	29	3.2	30	65	17	79	17	17	8	57	1.63
5243651--5243705	23	2.4	23	90	0	83	32	27	21	18	1.96
5243651--5243714	23	2.8	23	79	9	69	32	26	21	18	1.97
5244305--5244457	63	2.4	63	86	3	209	22	20	22	33	1.97
5250552--5250643	23	4.0	23	85	0	112	27	25	27	20	1.99
5250938--5250995	25	2.3	25	79	8	64	39	8	13	37	1.76
5255742--5255788	21	2.2	21	88	7	69	38	19	42	0	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5256160--5256251	43	2.1	43	86	4	123	30	26	19	23	1.98
5276351--5276399	24	2.0	24	84	11	64	44	6	14	34	1.70
5277093--5277174	32	2.6	32	81	11	96	42	26	14	15	1.86
5282677--5282820	78	1.8	78	90	0	234	43	4	9	43	1.57
5283626--5283753	8	16.2	8	74	8	102	47	6	3	42	1.44
5283626--5283753	10	13.9	9	70	18	52	47	6	3	42	1.44
5283584--5283752	12	13.8	12	72	13	71	45	8	4	42	1.53
5283626--5283753	6	21.7	6	77	9	102	47	6	3	42	1.44
5284412--5284499	40	2.2	40	91	2	140	26	21	20	31	1.98
5284640--5284683	17	2.6	17	81	0	52	22	0	2	75	0.92
5296136--5296178	20	2.2	20	95	0	77	44	6	34	13	1.72
5303356--5303393	3	13.0	3	84	15	53	63	0	0	36	0.95
5304926--5305014	16	5.6	16	68	17	60	38	1	1	59	1.12
5305355--5305392	3	13.0	3	84	15	53	63	0	0	36	0.95
5306925--5307013	16	5.6	16	68	17	60	38	1	1	59	1.12
5314213--5314241	15	1.9	15	100	0	58	6	65	20	6	1.40
5316776--5316803	13	2.2	13	100	0	56	7	0	28	64	1.20
5317434--5317465	15	2.1	15	100	0	64	25	6	0	68	1.12
5320601--5320628	2	14.0	2	100	0	56	50	0	0	50	1.00
5323520--5323713	105	1.8	105	84	0	262	32	12	27	26	1.93
5334293--5334325	16	2.1	16	88	11	50	33	0	33	33	1.58
5347841--5347931	45	2.0	45	95	0	164	29	14	1	54	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5347841--5347903	21	2.8	22	67	21	58	28	14	0	57	1.38
5347927--5347972	24	1.9	24	100	0	92	47	13	17	21	1.81
5349933--5349976	2	22.0	2	100	0	88	50	0	0	50	1.00
5353359--5353471	47	2.4	47	89	0	163	30	16	7	45	1.76
5353504--5354160	81	8.1	81	84	1	764	31	22	10	35	1.88
5353529--5354160	162	3.9	162	85	2	849	31	21	10	35	1.88
5353504--5354160	243	2.7	241	85	3	843	31	22	10	35	1.88
5354321--5354581	57	4.6	57	92	0	396	38	17	8	36	1.79
5357952--5357982	16	1.9	16	93	0	53	54	9	19	16	1.68
5359707--5359765	15	4.0	15	82	2	57	20	3	8	67	1.31
5362227--5362343	50	2.3	50	83	7	146	37	6	12	42	1.70
5362921--5362962	17	2.3	19	80	19	54	28	0	0	71	0.86
5363535--5363616	20	4.2	19	73	13	67	26	15	23	34	1.95
5368444--5368488	7	6.3	7	97	2	81	0	57	0	42	0.98
5380106--5380146	13	3.0	14	89	7	66	29	21	29	19	1.98
5380096--5380146	7	7.6	7	78	8	61	29	23	27	19	1.98
5380142--5380170	14	2.0	15	93	6	51	6	20	51	20	1.70
5380171--5380209	21	1.9	20	94	5	69	33	20	25	20	1.97
5387371--5387431	10	6.1	10	70	14	54	27	26	27	18	1.98
5387373--5387431	20	2.9	22	87	9	74	28	25	28	16	1.97
5387385--5387431	20	2.4	19	92	7	76	29	25	27	17	1.97
5394501--5394543	5	8.6	5	90	10	70	18	0	0	81	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5402642--5402699	26	2.5	23	77	20	66	41	0	36	22	1.54
5410981--5411068	40	2.2	39	84	8	106	32	20	11	35	1.88
5411016--5411068	20	2.7	20	69	0	52	39	16	9	33	1.81
5411606--5411637	11	3.0	11	95	4	57	9	0	25	65	1.22
5414101--5414140	13	3.2	13	83	16	57	0	10	5	85	0.75
5414108--5414140	12	2.7	12	95	4	57	0	9	6	84	0.76
5416099--5416142	20	2.2	20	83	0	52	25	27	4	43	1.74
5420962--5421167	108	1.9	106	87	5	301	43	19	15	21	1.88
5427139--5427185	18	2.6	18	93	0	76	38	0	21	40	1.53
5428169--5428235	23	2.9	23	76	8	73	20	25	25	28	1.99
5428383--5428429	23	2.1	23	84	11	62	31	2	14	51	1.55
5429360--5429428	33	2.1	33	91	0	111	31	8	26	33	1.87
5429367--5429436	33	2.1	33	91	0	113	30	10	28	31	1.89
5434826--5434862	17	2.2	17	90	0	56	21	18	27	32	1.97
5438862--5438923	12	5.6	12	74	14	62	45	0	1	53	1.10
5438888--5439076	22	8.6	22	91	4	301	39	0	9	50	1.39
5442619--5442670	19	2.7	19	85	8	61	26	17	30	25	1.97
5446143--5446202	16	3.8	15	75	20	52	33	0	5	61	1.17
5459145--5459200	29	1.9	29	96	0	103	42	17	14	25	1.87
5463820--5463878	29	2.0	29	96	0	109	50	13	11	23	1.74
5466615--5466644	14	2.1	14	93	0	51	36	6	20	36	1.79
5466810--5466876	26	2.7	26	84	15	88	47	4	0	47	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5466892--5467022	31	4.3	29	67	17	70	45	0	5	49	1.25
5466991--5467035	23	2.0	23	90	0	72	44	0	2	53	1.13
5466992--5467042	23	2.2	23	85	0	66	47	0	1	50	1.12
5467052--5467132	27	3.0	27	76	7	83	50	2	1	45	1.22
5467212--5467258	22	2.1	23	88	4	69	53	0	2	44	1.12
5467195--5467256	30	2.0	33	84	9	85	50	0	3	46	1.17
5467220--5467270	22	2.3	22	80	6	59	54	0	1	43	1.11
5467448--5467489	22	1.9	22	95	0	75	35	7	21	35	1.81
5467510--5467597	42	2.1	42	93	0	149	50	18	12	19	1.78
5468494--5468659	89	1.9	89	89	2	262	31	21	6	39	1.79
5468506--5468659	44	3.5	45	93	0	249	30	22	7	39	1.81
5468929--5469499	59	9.7	59	75	5	496	29	22	10	37	1.88
5468884--5469507	117	5.3	117	76	7	521	30	21	11	37	1.88
5468943--5469502	176	3.2	176	95	1	989	30	21	10	37	1.88
5473894--5473929	15	2.4	15	90	0	54	13	16	33	36	1.89
5474304--5474333	15	2.1	14	93	6	51	56	6	26	10	1.57
5480080--5480117	20	1.9	20	94	0	67	13	31	31	23	1.93
5480446--5480496	7	7.0	7	75	16	50	39	3	15	41	1.66
5483532--5483711	44	4.0	45	91	0	274	32	22	7	38	1.81
5483532--5483711	89	2.0	90	89	2	274	32	22	7	38	1.81
5483953--5484155	59	3.5	58	77	8	223	27	22	11	38	1.88
5483906--5484161	117	2.2	118	85	4	340	29	22	10	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5486063--5486092	15	2.0	15	93	0	51	40	16	0	43	1.48
5496487--5496536	14	3.5	14	86	2	55	28	22	20	30	1.98
5496499--5496536	14	2.7	15	92	8	62	26	23	15	34	1.95
5501912--5501956	23	2.0	23	81	0	54	35	2	2	60	1.22
5502458--5502497	18	2.2	18	90	4	62	50	0	2	47	1.14
5508385--5508418	10	3.3	10	88	8	50	23	11	2	61	1.43
5509623--5509677	3	18.3	3	100	0	110	65	0	0	34	0.93
5521998--5522086	28	3.2	28	96	0	169	29	7	15	47	1.74
5526285--5526355	16	4.2	16	75	18	56	47	0	0	52	1.00
5528056--5528115	23	2.6	24	82	15	81	30	3	0	66	1.07

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   30   31   32   
          33   34   35   36   37   38   39   40