genome.fa.s7999.2.7.7.80.10.50.1000.18.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  18  of  50  ( 5918 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)
4678539--4678702	58	2.9	57	79	10	199	39	23	4	32	1.76
4678539--4678702	29	5.7	28	76	13	145	39	23	4	32	1.76
4678714--4678769	9	6.0	9	74	14	51	21	30	30	17	1.96
4678714--4678769	28	2.0	28	86	6	78	21	30	30	17	1.96
4685956--4686070	28	4.1	27	73	9	97	42	17	5	34	1.72
4686045--4686088	19	2.5	17	79	13	52	34	20	6	38	1.79
4686101--4686140	18	2.2	18	95	0	71	10	22	47	20	1.79
4686136--4686184	9	5.3	9	83	13	64	22	32	30	14	1.93
4686136--4686184	19	2.7	18	84	12	64	22	32	30	14	1.93
4687854--4687906	3	17.3	3	96	3	97	32	0	0	67	0.91
4694536--4694598	32	1.9	33	84	9	85	39	1	9	49	1.45
4694535--4694698	83	2.0	83	86	4	235	36	4	11	46	1.62
4696031--4696062	16	2.0	16	93	0	55	71	0	15	12	1.14
4700585--4700747	83	2.0	83	82	2	202	39	3	11	44	1.58
4701398--4701479	8	10.2	8	74	0	74	56	9	8	25	1.60
4701398--4701476	16	4.9	16	92	0	131	55	10	8	25	1.62
4701395--4701476	32	2.6	32	96	0	155	54	9	9	25	1.63
4703589--4703637	20	2.4	21	86	10	66	32	18	22	26	1.97
4710692--4710728	19	1.9	19	100	0	74	37	5	16	40	1.71
4714886--4714922	19	1.9	19	100	0	74	37	5	16	40	1.71
4723255--4723334	30	2.6	30	86	4	97	33	21	12	32	1.91
4745943--4746020	30	2.6	30	80	11	88	38	14	3	43	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4749333--4749371	13	2.9	14	81	11	55	12	25	0	61	1.31
4749566--4749600	17	1.9	19	88	11	56	80	5	14	0	0.89
4757832--4757877	21	2.1	22	92	4	76	43	4	4	47	1.42
4758983--4759099	57	2.1	57	98	0	225	49	11	12	25	1.75
4759590--4759638	24	2.0	25	84	11	66	44	6	20	28	1.75
4761409--4761441	17	1.9	17	93	0	57	12	9	24	54	1.66
4765533--4766401	53	16.3	53	80	7	832	21	24	17	35	1.95
4767551--4767650	14	7.1	14	70	18	57	5	18	0	77	0.95
4767549--4767615	21	3.2	22	84	12	72	4	14	0	80	0.86
4767549--4767633	8	11.7	7	77	17	77	5	14	0	80	0.90
4767544--4767634	10	9.3	10	73	20	61	6	13	0	80	0.90
4767558--4767634	18	4.5	17	81	18	97	6	14	0	79	0.92
4767576--4767645	37	1.9	36	88	8	106	5	18	0	75	0.99
4767585--4767645	18	3.3	19	81	9	72	6	19	0	73	1.04
4775130--4775179	14	3.6	14	88	0	64	54	2	2	42	1.23
4775107--4775191	17	5.1	16	71	18	59	51	4	1	42	1.30
4775504--4775550	24	2.0	24	82	0	58	25	19	19	36	1.95
4780787--4781247	234	2.0	233	83	5	590	40	9	14	35	1.78
4781339--4781487	79	1.9	78	82	8	187	36	8	15	40	1.77
4783218--4783534	100	3.1	99	80	7	352	39	15	9	35	1.80
4787368--4787747	190	2.0	190	97	0	715	34	19	18	27	1.95
4797030--4797200	46	3.8	44	89	4	252	40	7	21	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4797030--4797200	90	1.9	90	90	2	272	40	7	21	30	1.81
4803212--4803253	22	2.0	22	85	4	59	16	9	21	52	1.72
4803310--4803403	6	15.7	6	79	11	68	72	1	3	23	1.06
4803311--4803403	23	3.8	24	81	6	98	72	1	3	23	1.06
4803308--4803385	3	27.3	3	77	10	83	71	0	2	25	0.98
4803315--4803378	20	3.3	20	91	4	87	71	0	3	25	1.00
4805050--4805084	3	11.7	3	100	0	70	65	0	0	34	0.93
4808945--4808985	16	2.5	17	84	4	57	56	2	2	39	1.26
4808984--4809093	30	3.7	30	81	3	125	38	10	9	42	1.70
4812228--4812269	2	21.0	2	100	0	84	50	0	0	50	1.00
4819148--4819206	25	2.4	25	88	2	84	30	0	20	49	1.49
4828554--4828599	18	2.6	18	96	0	83	28	13	34	23	1.92
4828974--4829316	54	6.4	54	80	3	334	39	18	14	28	1.89
4828957--4829316	161	2.2	162	82	2	418	39	18	14	28	1.90
4835798--4835883	27	3.2	27	64	18	70	40	19	12	26	1.88
4835789--4835910	54	2.3	54	92	0	208	40	21	12	26	1.88
4852853--4852898	19	2.4	19	92	0	74	23	34	21	19	1.96
4854775--4854929	54	2.9	54	84	4	186	36	17	16	29	1.91
4859346--4859700	54	6.6	54	86	0	442	38	21	15	25	1.92
4866479--4866652	90	2.0	88	89	2	267	37	10	6	44	1.67
4866617--4866686	22	3.3	21	70	16	63	50	2	4	42	1.37
4870465--4870595	61	2.1	61	84	0	163	29	26	14	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4881740--4881901	40	4.1	40	94	0	288	24	16	26	32	1.96
4881999--4882483	45	10.8	45	94	0	819	40	6	21	31	1.79
4889054--4889095	22	1.9	22	95	0	75	73	0	4	21	1.01
4897478--4897526	19	2.6	19	83	3	64	75	2	2	20	1.00
4897476--4897530	23	2.4	23	78	9	58	74	1	1	21	1.01
4898156--4898304	75	2.0	76	85	4	203	60	7	2	29	1.38
4898184--4898331	76	2.0	75	87	4	217	58	7	3	31	1.42
4899554--4899605	21	2.5	21	81	3	61	53	1	7	36	1.41
4914133--4914177	15	3.0	15	84	9	65	46	6	0	46	1.29
4916225--4916275	19	2.9	17	75	11	57	43	11	9	35	1.75
4936350--4936423	18	4.2	17	70	14	60	40	10	13	35	1.80
4939968--4940013	17	2.6	17	89	3	74	43	0	17	39	1.49
4941326--4941635	44	7.0	44	86	1	415	40	10	22	26	1.87
4947826--4947876	21	2.6	19	81	9	59	31	11	21	35	1.90
4948438--4948652	44	4.9	44	83	3	254	42	11	20	25	1.85
4948438--4948652	88	2.4	88	84	4	281	42	11	20	25	1.85
4951808--4951889	17	4.6	18	76	8	78	45	14	8	31	1.75
4951838--4951888	18	2.8	18	82	11	68	52	13	5	27	1.63
4957527--4957632	20	5.2	20	77	13	74	33	4	33	28	1.78
4957527--4957621	21	4.6	21	80	8	81	33	5	32	28	1.80
4957564--4957633	21	3.4	21	86	2	97	31	4	32	31	1.77
4957594--4957639	21	2.2	21	84	7	58	41	10	21	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4964709--4964811	49	2.1	49	88	0	152	22	20	26	31	1.98
4964794--4964831	16	2.3	17	95	4	69	21	31	21	26	1.98
4964745--4964869	65	1.9	65	86	3	180	21	24	27	27	1.99
4967731--4967767	16	2.2	17	90	4	58	56	16	13	13	1.67
4969417--4969452	15	2.4	15	90	0	54	44	2	27	25	1.68
4970309--4970358	5	10.0	5	75	16	50	74	0	4	22	0.99
4970307--4970382	21	3.7	19	75	20	66	71	0	5	23	1.07
4970307--4970367	10	6.3	10	73	22	51	72	0	3	24	1.00
4971021--4971192	76	2.3	73	86	4	220	56	12	0	29	1.41
4971146--4971183	19	2.0	19	89	0	58	52	15	0	31	1.43
4973037--4973084	5	9.4	5	78	13	53	72	0	2	25	0.95
4973040--4973070	16	1.9	16	100	0	62	70	0	0	29	0.87
4973037--4973084	20	2.3	21	89	10	73	72	0	2	25	0.95
4973595--4973626	16	2.0	16	93	0	55	37	9	0	53	1.34
4973691--4973805	57	2.0	57	91	0	185	34	31	20	13	1.91
4973885--4973932	24	2.0	24	83	0	60	39	18	14	27	1.90
4978340--4978370	15	2.1	15	100	0	62	41	6	0	51	1.27
4978444--4978551	57	1.9	57	88	3	164	34	25	22	17	1.96
4982912--4983022	57	1.9	57	90	0	177	34	29	21	14	1.93
4985498--4985536	17	2.3	17	90	0	60	28	28	23	20	1.99
4987482--4987596	57	2.0	57	91	0	185	35	31	19	13	1.91
4994901--4994939	17	2.3	17	90	0	60	28	28	23	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4997006--4997120	57	2.0	57	87	0	167	37	30	18	13	1.90
5001766--5001870	55	1.9	55	90	0	165	39	27	18	15	1.90
5005740--5005854	57	2.0	57	87	0	167	36	29	19	14	1.91
5009612--5009663	25	2.1	25	92	0	86	38	21	15	25	1.92
5010035--5010077	5	8.4	5	80	14	52	79	0	2	18	0.85
5010030--5010078	11	4.5	11	73	21	50	77	0	4	18	0.92
5010030--5010077	15	3.0	16	84	9	71	77	0	4	18	0.93
5010034--5010090	27	2.2	26	87	6	80	73	1	5	19	1.11
5012391--5012432	17	2.4	17	88	4	57	69	0	0	30	0.89
5012390--5012441	28	2.0	28	88	11	83	67	0	0	32	0.91

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