genome.fa.s9175.2.7.7.80.10.50.1000.27.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  27  of  51  ( 6037 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)
5413194--5413275	42	1.9	44	90	5	132	37	7	2	52	1.43
5413201--5413288	42	2.0	44	85	8	119	37	7	2	52	1.43
5413711--5413735	2	12.5	2	100	0	50	52	0	0	48	1.00
5413853--5413877	5	5.0	5	100	0	50	0	20	40	40	1.52
5414006--5414042	18	2.0	19	89	5	58	5	16	32	45	1.70
5415604--5415644	21	2.0	21	100	0	82	39	4	4	51	1.45
5415601--5415655	21	2.8	19	84	10	74	41	3	5	49	1.43
5416331--5416402	25	2.8	25	85	4	99	66	5	4	23	1.30
5416331--5416402	13	5.6	13	76	14	69	66	5	4	23	1.30
5424856--5424913	20	2.9	20	87	5	82	31	12	29	27	1.92
5424873--5424924	20	2.6	20	87	0	77	36	11	25	26	1.90
5424909--5424952	20	2.2	20	83	0	52	38	9	22	29	1.85
5427353--5427427	31	2.4	31	88	4	116	48	9	10	32	1.70
5428405--5428638	36	6.6	36	72	6	192	38	17	11	32	1.86
5428405--5428654	72	3.5	72	77	8	244	39	16	11	32	1.85
5429522--5429614	38	2.4	38	78	0	105	43	19	11	25	1.85
5429559--5429614	19	2.9	19	76	10	60	41	21	10	26	1.86
5429890--5429961	35	2.1	35	97	0	135	41	13	11	33	1.80
5441151--5441247	42	2.3	41	83	1	122	23	23	22	29	1.99
5441484--5441558	22	3.5	21	68	15	64	26	16	21	36	1.94
5441360--5441610	122	2.1	122	89	0	376	30	17	21	30	1.96
5441477--5441783	42	7.1	42	76	9	267	28	19	21	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5442164--5442508	53	6.6	53	86	2	446	30	20	26	22	1.98
5442164--5442508	159	2.2	159	87	2	491	30	20	26	22	1.98
5445013--5445059	19	2.5	19	89	6	69	51	4	12	31	1.59
5453231--5453293	32	2.0	32	83	0	81	68	0	3	28	1.05
5454062--5454109	19	2.4	21	83	13	66	66	2	0	31	1.03
5458353--5458384	16	1.9	17	93	6	57	37	6	21	34	1.79
5463708--5463737	12	2.5	12	94	0	51	23	16	0	60	1.36
5468415--5468513	2	49.5	2	100	0	198	49	0	0	50	1.00
5470671--5470712	20	2.1	20	90	0	66	40	30	2	26	1.69
5473481--5473523	20	2.2	20	87	8	61	53	4	16	25	1.62
5474976--5475023	20	2.4	20	100	0	96	39	18	10	31	1.85
5481384--5481449	3	22.0	3	100	0	132	66	0	0	33	0.92
5481626--5481772	47	3.2	47	75	11	187	23	19	27	29	1.98
5481615--5481865	90	2.9	90	91	4	390	23	19	30	27	1.98
5481734--5482000	129	2.1	129	97	0	507	23	18	31	25	1.97
5482033--5482094	28	2.2	28	88	5	90	51	12	11	24	1.72
5482948--5483117	64	2.6	64	78	8	157	45	14	11	28	1.80
5483062--5483125	30	2.1	30	91	5	103	39	14	10	35	1.81
5483230--5483483	29	8.8	29	86	8	349	45	14	9	31	1.76
5483230--5483476	57	4.3	57	87	9	351	44	14	8	31	1.76
5483728--5483825	36	2.8	35	80	6	110	32	13	19	34	1.90
5483799--5484035	105	2.3	105	83	6	288	40	12	16	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5484454--5484499	4	12.0	4	90	9	78	23	0	26	50	1.50
5485681--5485720	11	3.6	11	87	12	64	5	10	10	75	1.19
5485669--5485731	22	2.6	24	82	14	85	3	17	9	69	1.28
5485714--5485761	25	2.0	25	87	4	71	0	18	8	72	1.08
5488599--5488691	31	3.0	31	98	1	177	61	9	13	15	1.57
5492381--5492431	3	17.0	3	91	0	84	62	0	0	37	0.95
5493389--5493428	21	1.9	21	100	0	80	50	7	12	30	1.68
5494491--5494519	12	2.3	13	94	5	51	58	0	0	41	0.98
5496214--5496313	52	1.9	51	85	2	137	38	18	15	29	1.90
5496695--5496757	2	34.0	2	84	15	91	47	0	0	52	1.00
5497507--5497552	15	3.1	15	81	6	67	41	8	19	30	1.82
5505914--5505965	20	2.6	20	90	0	86	30	19	15	34	1.93
5509008--5509066	21	2.8	21	89	0	82	49	20	8	22	1.75
5511716--5511964	35	7.1	35	84	1	291	36	17	23	23	1.95
5511716--5511963	71	3.5	70	85	1	298	36	17	22	23	1.95
5511716--5511964	106	2.4	105	85	3	329	36	17	23	23	1.95
5511982--5512081	52	1.9	52	93	0	173	38	11	31	20	1.87
5512653--5512811	68	2.3	68	74	6	151	29	22	18	28	1.98
5516390--5516419	15	2.0	15	93	0	51	6	33	10	50	1.62
5530749--5530802	14	3.6	14	72	18	54	57	9	16	16	1.64
5530748--5530804	20	3.2	20	64	35	58	56	8	17	17	1.66
5530748--5530820	32	2.3	32	100	0	146	54	9	17	17	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5530763--5530830	6	11.0	6	72	12	57	50	11	19	19	1.78
5536615--5536735	36	3.3	36	78	5	129	38	21	17	23	1.93
5536721--5537600	216	4.1	216	93	0	1485	33	15	19	32	1.92
5537572--5537716	57	2.6	56	77	9	143	27	20	21	31	1.98
5541249--5541292	21	2.2	20	83	4	52	47	2	0	50	1.13
5542791--5542821	16	1.9	16	93	0	53	22	9	12	54	1.67
5546384--5546443	2	30.0	2	100	0	120	50	0	0	50	1.00
5552531--5552566	17	2.1	17	100	0	72	27	30	16	25	1.97
5552481--5552597	11	10.6	11	67	18	57	29	23	21	25	1.99
5552553--5552610	12	4.9	12	75	12	57	36	27	15	20	1.93
5554286--5554359	11	7.5	11	75	25	85	27	29	16	27	1.97
5554297--5554369	8	7.9	8	74	25	56	26	31	15	27	1.95
5554286--5554368	19	4.3	19	98	1	157	26	30	15	27	1.96
5555418--5555460	17	2.4	18	85	14	54	20	4	11	62	1.46
5555844--5555929	7	11.7	7	75	20	61	50	30	0	19	1.48
5555872--5555934	32	2.0	32	84	6	83	49	26	0	23	1.51
5556011--5556040	14	2.1	14	93	0	51	43	0	6	50	1.28
5556144--5556262	37	3.2	37	65	18	95	20	26	24	29	1.99
5556649--5556761	20	5.7	20	96	0	208	38	20	20	20	1.93
5556748--5556794	20	2.3	20	88	0	67	34	27	17	21	1.95
5557410--5557488	20	4.0	21	83	9	103	37	25	20	16	1.93
5557410--5557488	40	2.0	40	90	5	124	37	25	20	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5557470--5557565	33	2.9	34	90	3	149	45	19	21	12	1.83
5557503--5557569	20	3.7	19	72	22	72	46	19	22	11	1.82
5557602--5557669	14	4.5	14	77	16	73	11	25	19	44	1.84
5557616--5557689	33	2.2	34	90	2	114	14	24	18	41	1.89
5557797--5557831	14	2.5	14	85	0	52	48	20	0	31	1.50
5559231--5559323	42	2.2	42	80	3	107	22	17	39	20	1.92
5559807--5559911	20	5.2	20	95	0	156	36	23	20	20	1.95
5559956--5560132	20	9.5	20	77	16	166	18	18	20	41	1.90
5560011--5560109	33	2.9	34	80	3	128	14	20	21	44	1.86
5561867--5561916	20	2.5	20	93	0	82	50	24	14	12	1.76
5562301--5562366	22	3.0	22	88	0	105	21	12	39	27	1.88
5562570--5562675	20	5.3	20	96	0	194	21	19	18	39	1.92
5562665--5562738	21	3.5	21	86	0	94	37	16	22	22	1.93
5563299--5563341	18	2.4	18	100	0	86	74	0	4	20	1.00
5565094--5565136	12	3.4	12	78	12	50	0	20	0	79	0.74
5565090--5565137	14	3.6	14	80	11	64	0	20	0	79	0.74
5566380--5566608	40	5.8	40	70	11	141	22	19	22	35	1.96
5566410--5566477	35	1.9	35	85	5	93	26	19	16	38	1.92
5566453--5566625	21	8.4	21	74	12	153	21	20	25	32	1.97
5566445--5566633	61	3.1	61	93	3	335	22	20	23	33	1.97
5567044--5567134	19	4.4	20	76	17	105	30	28	5	35	1.80
5567055--5567136	44	1.9	41	87	7	119	32	29	6	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5567558--5567623	5	12.0	5	79	17	69	72	3	3	21	1.11
5567558--5567623	29	2.4	27	89	5	96	72	3	3	21	1.11
5571065--5571142	24	3.2	24	74	0	66	47	16	11	24	1.80
5582559--5582596	20	1.9	20	88	0	58	31	2	2	63	1.22
5589247--5589273	3	9.0	3	100	0	54	66	0	33	0	0.92
5597857--5598174	40	7.9	40	92	0	483	31	16	10	41	1.82
5597855--5598213	80	4.5	80	88	1	506	30	17	10	41	1.84
5598019--5598087	23	3.3	23	64	29	53	33	14	13	39	1.85
5597859--5598238	40	9.6	40	85	4	396	30	17	11	41	1.84
5598177--5598334	66	2.4	66	79	10	169	29	18	14	37	1.90

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   41   42   43   44   45   46   47   48   
          49   50   51