genome.fa.s8428.2.7.7.80.10.50.1000.23.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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   

This is table  23  of  30  ( 3508 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)
5228721--5228797	31	2.5	30	87	2	100	24	29	12	32	1.93
5229981--5230015	13	2.8	12	87	8	52	31	0	2	65	1.07
5244622--5244654	17	2.1	16	88	11	50	45	6	15	33	1.70
5247575--5247627	2	27.0	2	96	3	99	50	0	0	49	1.00
5248439--5248475	19	1.9	19	94	0	65	40	0	21	37	1.54
5248899--5249045	73	2.0	73	82	0	177	40	10	9	38	1.73
5251168--5251200	17	1.9	17	88	11	50	39	0	0	60	0.97
5251161--5251201	16	2.5	17	77	18	50	39	0	0	60	0.96
5253560--5253609	21	2.4	21	90	6	75	20	18	30	32	1.96
5257603--5257706	30	3.5	30	94	2	174	43	6	16	33	1.74
5257830--5257869	22	1.9	20	90	10	62	47	35	2	15	1.58
5261295--5261322	14	2.0	14	100	0	56	28	7	42	21	1.79
5267538--5267583	20	2.3	19	85	14	58	50	8	15	26	1.73
5281991--5282015	13	1.9	13	100	0	50	40	24	16	20	1.91
5282202--5282301	51	1.9	52	95	2	184	53	29	5	13	1.60
5283261--5283300	21	1.9	21	85	10	55	55	0	10	35	1.34
5288339--5288371	17	1.9	17	100	0	66	42	6	24	27	1.78
5290495--5290611	29	4.1	28	82	5	135	37	0	19	42	1.52
5291602--5291717	58	2.0	58	94	0	205	32	23	24	19	1.97
5298851--5298926	17	4.5	17	72	8	57	31	9	14	44	1.76
5298948--5299001	17	3.2	17	78	0	63	35	11	7	46	1.67
5301532--5301575	4	10.8	4	83	11	54	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5304410--5304539	64	2.0	64	98	0	251	33	28	16	20	1.95
5304899--5304957	21	2.8	21	92	0	100	22	42	28	6	1.79
5309526--5309782	129	2.0	129	83	3	329	29	19	15	34	1.94
5310179--5310584	191	2.1	193	83	5	511	39	12	9	37	1.77
5319643--5319690	18	2.7	18	86	0	60	20	39	20	18	1.92
5321570--5321612	2	21.5	2	90	0	68	46	0	4	48	1.22
5321570--5321618	14	3.5	15	91	5	68	46	0	4	48	1.20
5323694--5323727	17	2.1	15	89	10	50	26	5	14	52	1.64
5326225--5326274	24	2.1	24	85	7	66	28	2	10	60	1.40
5326712--5326744	16	2.1	16	94	0	57	15	6	0	78	0.93
5333088--5333131	21	2.1	21	83	8	54	11	15	0	72	1.11
5339706--5339745	20	2.0	20	90	0	62	12	32	22	32	1.91
5343159--5343212	21	2.6	21	93	0	90	38	37	3	20	1.70
5351921--5351977	17	3.3	17	97	2	105	57	0	36	5	1.21
5351921--5351993	34	2.1	37	87	12	109	56	0	36	6	1.26
5357617--5357688	25	3.0	26	80	15	75	34	0	6	58	1.25
5357652--5357721	8	9.1	8	73	14	58	48	0	1	50	1.09
5357634--5357688	23	2.3	23	87	12	76	38	0	3	58	1.16
5357652--5357721	32	2.3	30	87	7	97	48	0	1	50	1.09
5357652--5357721	16	4.6	15	77	8	70	48	0	1	50	1.09
5360687--5360767	30	2.4	34	80	19	116	54	18	7	19	1.67
5360697--5360764	30	2.3	30	100	0	136	54	19	7	19	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5361829--5361860	16	1.9	17	93	6	57	56	0	0	43	0.99
5363218--5363309	3	31.0	3	84	2	123	59	0	0	40	0.97
5363684--5363846	73	2.2	74	86	3	224	32	18	14	34	1.91
5363756--5364463	113	6.2	114	85	7	880	27	19	14	38	1.91
5365280--5365614	83	4.0	83	93	1	530	37	22	13	27	1.91
5365854--5366043	82	2.3	82	97	0	353	37	22	14	25	1.92
5365425--5366283	429	2.0	429	99	0	1691	32	20	15	31	1.94
5367227--5367270	7	6.0	7	84	10	61	0	15	0	84	0.63
5367228--5367272	13	3.5	12	85	14	63	0	13	0	86	0.57
5367235--5367274	17	2.4	17	84	16	57	0	15	0	85	0.61
5367227--5367269	22	1.9	22	90	4	68	0	16	0	83	0.64
5367228--5367273	15	3.1	14	87	6	65	0	13	0	86	0.56
5377936--5378006	22	3.1	23	78	8	74	60	1	2	35	1.20
5378519--5378578	21	2.8	22	77	7	61	56	0	3	40	1.16
5380028--5380164	3	46.0	3	89	1	204	61	0	0	38	0.96
5381105--5381252	73	2.0	73	88	2	217	45	5	10	39	1.61
5384088--5384187	44	2.3	43	86	5	139	32	13	15	40	1.85
5384088--5384212	44	2.9	43	80	5	135	32	14	15	37	1.87
5390104--5390148	21	2.1	21	95	0	81	33	8	8	48	1.65
5391556--5391921	180	2.0	180	100	0	732	39	11	12	36	1.79
5392623--5392674	24	2.2	24	96	0	95	48	3	0	48	1.20
5393973--5394004	10	3.2	10	100	0	64	59	28	12	0	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5396896--5396925	13	2.3	13	94	0	51	53	3	0	43	1.17
5396820--5396957	2	69.0	2	70	16	90	46	2	3	47	1.35
5396975--5397061	11	8.3	10	68	21	54	47	1	4	47	1.30
5396910--5397017	22	5.3	20	74	14	71	46	1	4	47	1.34
5397058--5397159	48	2.1	48	85	3	134	45	2	4	47	1.39
5397335--5397470	67	2.1	67	86	5	188	43	6	6	43	1.56
5397647--5397700	21	2.6	21	96	0	99	25	16	27	29	1.97
5397689--5397842	20	7.6	20	78	9	152	15	22	24	38	1.92
5397646--5397866	82	2.7	82	75	8	216	19	19	24	35	1.95
5397647--5397866	20	10.7	21	76	6	121	20	19	25	35	1.96
5397650--5397880	123	1.9	123	86	1	329	19	19	24	35	1.95
5397855--5397906	26	2.0	26	96	0	95	17	19	25	38	1.93
5398011--5398059	6	8.2	6	100	0	98	34	48	16	0	1.46
5398554--5398636	6	14.5	6	97	1	129	0	16	54	28	1.43
5398760--5398870	20	5.4	20	85	2	105	37	23	21	17	1.93
5398730--5398895	41	4.0	41	75	6	158	37	22	20	19	1.94
5398754--5398899	21	7.1	21	79	3	118	37	24	19	18	1.94
5399107--5399167	14	4.3	14	74	12	52	44	6	3	45	1.46
5399061--5399306	31	7.6	30	71	17	97	42	4	3	49	1.40
5399083--5399195	43	2.8	40	81	14	128	44	6	3	46	1.45
5399114--5399175	14	4.4	14	74	11	54	46	8	1	43	1.42
5399185--5399231	24	1.9	25	86	4	69	38	0	4	57	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5399177--5399334	31	4.7	36	74	19	130	43	4	2	49	1.36
5399177--5399316	67	2.1	67	93	0	235	43	4	2	49	1.37
5399765--5399804	10	4.0	10	84	12	55	32	27	0	40	1.57
5399931--5400263	111	3.0	111	95	0	594	35	7	11	45	1.68
5401374--5401493	51	2.4	51	78	2	116	25	28	26	20	1.99
5401837--5401885	23	2.1	23	96	0	89	46	4	0	48	1.20
5401903--5401960	22	2.4	25	88	11	95	43	0	0	56	0.99
5413944--5414033	31	2.9	31	79	9	94	16	24	27	31	1.97
5418328--5418367	3	13.7	3	89	5	64	62	0	0	37	0.95
5418537--5418788	105	2.4	105	85	2	335	24	19	17	39	1.92
5418716--5418771	16	3.3	16	68	22	51	19	23	8	48	1.77
5418708--5419141	225	1.9	223	87	3	640	26	21	15	35	1.94
5420017--5420110	24	3.8	24	77	16	86	8	12	1	77	1.03
5420010--5420110	25	4.0	25	75	14	84	7	13	0	77	1.04
5420011--5420083	19	4.1	19	84	15	86	9	13	0	76	1.01
5420009--5420108	33	3.0	33	75	21	100	8	14	1	77	1.05
5420035--5420105	16	4.4	16	84	10	83	8	12	1	77	1.05
5433386--5433446	3	20.7	3	89	3	97	62	1	0	36	1.05
5448019--5448071	17	3.3	16	85	12	65	79	1	11	7	1.01
5449315--5449446	46	2.8	48	88	4	205	28	20	18	32	1.96
5449182--5449404	112	2.0	112	91	1	358	26	23	17	32	1.97
5449363--5449770	113	3.7	113	92	2	657	28	23	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5452147--5452177	16	1.9	16	93	0	53	35	0	0	64	0.94
5453293--5453323	16	1.9	16	93	0	53	16	9	12	61	1.56
5453875--5453917	18	2.2	20	88	8	63	62	0	0	37	0.95
5456193--5456239	15	3.2	15	82	11	53	61	0	0	38	0.96
5457473--5457518	18	2.5	20	72	17	53	34	0	6	58	1.24
5463400--5463557	79	2.0	79	100	0	316	29	11	16	43	1.83
5464442--5464486	19	2.5	19	85	7	58	15	6	4	73	1.21
5466416--5466819	113	3.6	113	92	2	665	30	17	23	28	1.97
5466736--5466865	46	2.8	46	92	0	215	32	19	20	28	1.96
5466778--5466998	110	2.0	111	89	5	340	32	17	23	27	1.97

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