genome.fa.s8539.2.7.7.80.10.50.1000.26.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  26  of  31  ( 3630 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)
4941974--4942036	14	4.5	14	74	6	56	73	3	23	0	0.98
4943953--4944064	54	2.1	54	88	3	163	28	8	20	41	1.82
4943963--4944078	54	2.1	55	84	3	146	32	8	19	38	1.83
4944799--4945271	91	5.2	90	91	2	750	36	16	21	24	1.94
4945437--4945469	17	1.9	17	100	0	66	18	0	3	78	0.87
4945896--4945929	11	3.1	11	91	0	59	47	0	52	0	1.00
4946615--4946681	34	2.0	34	82	11	84	14	2	7	74	1.16
4963362--4963512	45	3.3	45	94	3	248	29	9	21	39	1.86
4969643--4969670	2	14.0	2	100	0	56	50	0	0	50	1.00
4973071--4973114	12	3.5	13	87	9	65	88	0	11	0	0.51
4973072--4973257	7	26.4	7	83	13	143	78	0	13	8	0.96
4973051--4973257	21	9.6	21	78	16	124	77	0	14	8	0.99
4973105--4973230	14	8.8	14	90	6	182	75	0	13	11	1.05
4973210--4973262	10	5.4	9	86	13	54	83	0	13	3	0.79
4974534--4974643	36	3.0	38	89	4	163	39	18	20	21	1.93
4974661--4975026	55	6.6	54	81	6	305	29	16	23	30	1.96
4974667--4975026	110	3.3	110	80	9	396	29	16	23	30	1.96
4974659--4975026	165	2.2	166	79	8	394	29	16	23	30	1.96
4981171--4981342	60	2.9	61	83	4	206	36	6	24	32	1.81
4981464--4981541	2	39.0	2	97	0	147	48	0	0	51	1.00
4984099--4984123	13	1.9	13	100	0	50	0	16	0	84	0.63
4986273--4986307	18	1.9	18	88	11	54	20	17	34	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4996307--4996364	20	2.9	19	80	9	71	53	10	15	20	1.71
4995948--4996406	180	2.5	181	85	5	635	41	14	16	28	1.87
4998579--4998619	21	2.0	21	95	0	73	46	9	26	17	1.79
4998586--4998643	21	2.8	21	89	0	80	44	10	27	17	1.81
4998926--4998983	21	2.8	21	97	0	107	55	0	36	8	1.31
5000397--5000445	19	2.6	19	96	0	89	34	0	8	57	1.29
5002514--5002549	18	2.0	18	94	0	63	47	5	27	19	1.72
5003850--5004305	252	1.8	252	88	2	702	36	13	16	33	1.88
5004046--5004477	200	2.2	199	87	2	607	37	14	17	31	1.89
5007237--5007604	185	2.0	186	84	5	487	37	15	16	30	1.90
5007844--5007963	64	1.9	64	96	0	222	30	10	14	44	1.79
5009851--5009897	20	2.3	19	85	14	58	53	4	0	42	1.20
5010397--5010437	16	2.6	16	96	0	73	41	12	14	31	1.83
5016389--5016440	22	2.4	22	86	0	68	53	11	21	13	1.70
5016463--5016505	18	2.4	18	92	3	70	76	4	2	16	1.05
5032653--5032795	60	2.4	61	79	10	152	36	13	19	30	1.91
5033202--5033226	12	2.1	12	100	0	50	48	16	20	16	1.82
5033685--5033759	36	2.1	37	85	7	100	69	2	13	14	1.30
5033765--5033802	17	2.4	16	86	8	51	78	5	5	10	1.06
5033795--5033862	24	2.6	26	75	17	68	70	2	5	20	1.21
5033876--5033965	34	2.7	32	80	11	90	76	0	8	14	1.01
5035441--5035594	84	1.9	82	86	5	220	24	17	22	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5035583--5035675	33	2.9	33	90	6	138	31	8	19	40	1.81
5035623--5035766	65	2.1	67	81	12	161	33	9	20	36	1.85
5035724--5035839	36	3.2	36	92	1	196	37	14	18	28	1.91
5035745--5035806	21	3.2	21	63	25	55	41	14	17	25	1.88
5035925--5036157	116	2.0	116	89	1	360	24	17	25	32	1.97
5036299--5036381	43	1.9	43	85	4	114	21	16	30	31	1.96
5040922--5040986	31	2.0	31	85	8	85	66	3	12	18	1.37
5041113--5041148	16	2.2	16	90	5	54	80	2	0	16	0.83
5041105--5041168	19	3.2	20	70	20	62	78	1	6	14	1.02
5041113--5041168	17	3.1	17	82	12	51	78	1	3	16	0.97
5041120--5041202	27	3.3	24	77	12	80	75	3	6	14	1.12
5042093--5042144	3	18.7	3	81	18	60	26	0	0	73	0.84
5042090--5042147	15	3.9	15	80	13	75	25	0	0	74	0.82
5042603--5042663	27	2.2	28	85	11	81	36	0	0	63	0.94
5042617--5042665	13	3.8	13	84	7	64	30	0	0	69	0.89
5044326--5044372	20	2.3	20	92	0	76	40	23	19	17	1.91
5046370--5046658	103	2.8	103	87	4	393	31	22	19	26	1.98
5046581--5046725	67	2.3	61	84	8	175	31	22	17	28	1.97
5046641--5046949	108	2.9	107	85	7	414	33	23	18	24	1.97
5047068--5047497	84	5.3	81	78	6	386	30	25	19	24	1.98
5047068--5047513	165	2.7	163	87	4	605	29	25	20	24	1.99
5047837--5047898	27	2.5	24	82	15	72	27	0	1	70	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5047838--5047901	9	7.4	9	75	12	55	25	0	1	73	0.92
5048815--5048850	18	2.0	18	88	0	54	47	13	19	19	1.83
5049156--5049212	24	2.4	24	88	5	80	50	14	21	14	1.76
5052922--5052999	31	2.5	31	95	0	138	15	14	11	58	1.62
5055668--5055875	57	3.7	56	78	11	221	30	11	16	41	1.83
5056192--5056494	135	2.2	137	85	2	396	34	18	19	26	1.95
5056491--5056854	39	9.5	39	85	4	508	31	17	16	35	1.92
5056508--5056854	189	1.8	190	91	1	581	31	17	16	35	1.92
5056716--5056776	20	3.1	20	65	13	54	27	14	16	40	1.88
5056866--5056989	59	2.1	59	86	0	176	29	29	13	27	1.94
5058720--5058760	7	6.0	7	86	13	59	24	2	0	73	0.96
5058720--5058760	21	2.0	20	95	4	73	24	2	0	73	0.96
5061276--5061362	45	1.9	45	90	0	138	40	5	22	31	1.78
5061902--5062486	199	2.9	198	86	5	739	32	13	20	32	1.92
5064014--5064093	42	1.9	42	94	0	142	35	8	21	35	1.84
5065094--5065212	44	2.7	44	96	1	213	36	22	14	26	1.93
5065201--5065246	18	2.8	16	83	6	56	28	28	6	36	1.82
5067690--5067806	21	5.4	21	78	13	105	30	28	19	21	1.98
5067710--5067784	23	3.4	22	83	10	91	32	28	18	21	1.97
5073439--5073488	21	2.4	21	86	0	64	34	28	16	22	1.95
5074508--5074583	20	3.8	20	78	16	75	26	32	18	22	1.97
5074912--5074945	17	2.0	17	100	0	68	11	11	17	58	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5080321--5080396	19	3.8	19	77	19	66	26	32	18	22	1.97
5083155--5083196	16	2.6	16	82	10	50	40	9	7	42	1.65
5083163--5083197	16	2.1	16	89	5	52	45	11	8	34	1.71
5088454--5088546	44	2.1	44	84	4	116	30	21	17	31	1.96
5092647--5092682	18	2.0	18	94	0	63	58	2	11	27	1.46
5096026--5096303	45	6.2	45	82	5	287	29	21	10	39	1.86
5096891--5096963	19	3.5	22	76	9	64	32	20	13	32	1.92
5098927--5098976	24	2.1	24	85	7	66	22	2	16	60	1.46
5105820--5105862	20	2.1	21	87	8	63	13	16	0	69	1.19
5110936--5110975	21	1.9	21	85	10	55	17	20	17	45	1.86
5111180--5111222	20	2.2	20	83	8	52	32	11	16	39	1.84
5111357--5111390	14	2.3	15	90	5	52	55	5	11	26	1.58
5113069--5113108	20	2.0	21	90	5	64	27	20	20	32	1.97
5114537--5114584	19	2.5	20	86	3	62	37	10	2	50	1.49
5115232--5115270	19	2.0	21	90	10	64	23	30	20	25	1.98
5120413--5120454	19	2.3	19	87	4	59	21	30	33	14	1.93
5125443--5125481	19	2.0	21	90	10	64	25	20	23	30	1.98
5134727--5134752	12	2.2	12	100	0	52	26	7	15	50	1.71
5135723--5135797	31	2.4	30	82	6	87	30	1	1	66	1.08
5135725--5135808	31	2.7	31	78	7	80	34	1	1	63	1.10
5143868--5144287	81	5.2	81	71	11	277	33	15	16	34	1.91
5143881--5144296	41	10.3	41	69	9	230	34	16	15	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5143807--5144296	163	3.0	160	79	8	474	34	16	15	34	1.90
5147122--5147183	3	20.7	3	86	6	90	61	1	0	37	1.06
5148393--5149714	655	2.0	662	95	4	2410	30	9	15	44	1.78
5150430--5150538	56	1.9	56	87	3	157	36	20	19	23	1.95
5151220--5151312	31	3.0	30	93	3	150	18	19	23	38	1.93
5152722--5152874	60	2.5	60	82	8	184	33	20	23	22	1.97
5153609--5153722	57	2.0	59	81	10	137	27	15	21	35	1.94
5153683--5153753	30	2.4	30	83	4	81	19	15	26	38	1.92
5163476--5163846	185	2.0	185	97	1	708	34	14	20	30	1.92
5168815--5169126	165	1.9	167	95	4	569	23	14	20	41	1.89

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