genome.fa.s8428.2.7.7.80.10.50.1000.26.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: 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  26  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)
6097975--6098026	3	18.0	3	76	7	54	34	0	0	65	0.93
6097977--6098026	20	2.5	20	93	3	84	36	0	0	64	0.94
6098475--6098532	20	2.8	21	79	10	75	39	22	12	25	1.89
6101334--6101382	3	16.0	3	82	4	62	34	0	0	65	0.93
6107361--6107445	24	3.5	24	80	0	89	20	11	17	50	1.77
6107346--6107449	48	2.2	48	83	0	127	19	12	17	50	1.77
6108029--6108085	26	2.2	26	82	14	66	29	12	8	49	1.70
6109083--6109187	31	3.3	31	70	16	97	50	12	0	36	1.47
6109054--6109189	66	2.1	65	97	1	254	47	11	1	39	1.48
6110285--6110816	264	2.0	264	95	0	965	34	20	14	30	1.92
6118015--6118070	2	28.0	2	100	0	112	50	0	0	50	1.00
6118499--6118546	18	2.7	18	77	6	53	47	2	0	50	1.12
6118513--6118586	23	3.1	23	79	13	78	47	2	1	48	1.24
6119104--6119253	59	2.6	56	81	10	162	39	6	4	50	1.48
6121701--6121840	70	2.0	70	97	0	262	35	7	27	29	1.83
6123064--6123119	23	2.5	22	78	16	62	35	0	5	58	1.21
6123064--6123115	22	2.4	22	76	0	59	36	0	5	57	1.23
6123708--6123740	17	1.9	17	88	11	50	33	0	0	66	0.92
6128900--6128931	12	2.8	11	90	9	55	81	0	0	18	0.70
6128903--6128930	12	2.3	12	100	0	56	85	0	0	14	0.59
6129402--6129500	39	2.6	39	88	1	146	22	26	10	41	1.85
6129406--6129470	21	3.2	21	65	20	57	23	29	6	41	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6129260--6129635	178	2.1	178	91	1	601	23	22	16	36	1.94
6129438--6130069	139	4.6	139	86	2	840	24	19	17	37	1.93
6129438--6130069	277	2.3	278	85	3	853	24	19	17	37	1.93
6129985--6130160	91	1.9	91	85	4	239	28	20	12	38	1.89
6130773--6130825	20	2.7	20	75	0	61	26	22	28	22	1.99
6130884--6131181	53	5.8	53	80	9	339	40	20	9	29	1.83
6131085--6131173	44	2.0	45	86	2	126	40	19	10	30	1.84
6131193--6131445	109	2.3	111	88	2	375	39	14	11	34	1.81
6131193--6131445	55	4.6	55	91	1	373	39	14	11	34	1.81
6133532--6133640	8	13.1	8	71	12	51	3	17	1	77	1.01
6133544--6133615	22	3.5	19	75	17	65	2	20	1	75	1.01
6133540--6133580	21	1.9	21	90	5	64	2	19	2	75	1.03
6133534--6133633	40	2.4	41	80	11	107	3	19	2	76	1.02
6133861--6133891	2	15.5	2	93	0	53	48	0	0	51	1.00
6137320--6137355	14	2.6	14	90	0	54	58	2	13	25	1.49
6138652--6138694	14	2.9	14	82	6	50	51	0	0	48	1.00
6139897--6140438	43	12.6	44	84	3	626	32	18	23	24	1.97
6141282--6141333	26	2.1	25	92	7	88	50	11	19	19	1.77
6144492--6144800	41	7.6	41	80	4	214	35	16	19	28	1.94
6144492--6145001	82	6.3	80	82	4	323	34	17	19	29	1.95
6144566--6145001	82	5.4	81	83	3	427	33	17	20	28	1.96
6144496--6145001	122	4.2	120	77	8	355	34	17	19	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6144541--6145023	41	11.9	41	74	9	280	33	18	20	28	1.95
6154707--6154773	21	3.2	21	65	23	52	29	2	2	64	1.23
6155484--6155627	73	2.0	72	97	2	272	36	12	9	40	1.76
6155610--6155653	19	2.3	19	88	0	70	65	0	0	34	0.93
6157689--6157725	12	2.9	13	84	8	58	16	21	24	37	1.93
6161726--6161781	22	2.5	22	77	5	60	30	16	25	28	1.96
6163477--6163507	16	1.9	16	100	0	62	25	19	25	29	1.99
6163635--6163722	41	2.1	41	89	0	131	26	14	25	34	1.94
6165447--6165475	12	2.3	13	94	5	51	27	17	20	34	1.95
6168541--6168571	15	2.1	15	100	0	62	32	12	29	25	1.93
6170997--6171029	16	2.1	16	100	0	66	18	24	24	33	1.97
6175734--6175797	34	1.9	34	84	9	87	50	4	0	45	1.22
6174908--6176141	613	2.0	621	95	1	2234	37	10	16	36	1.82
6177507--6177540	16	2.1	16	94	0	59	32	8	26	32	1.87
6178290--6178322	16	2.0	17	94	5	59	51	18	24	6	1.68
6188082--6188113	16	2.0	16	100	0	64	18	25	6	50	1.70
6197671--6197763	12	7.8	12	71	9	73	48	17	15	19	1.81
6197671--6197763	24	3.9	24	80	2	89	48	17	15	19	1.81
6197667--6197760	48	2.0	48	87	4	136	48	15	14	20	1.80
6197721--6197777	24	2.4	24	77	14	64	45	14	19	21	1.85
6198918--6198953	18	2.0	18	88	0	54	30	16	0	52	1.44
6200280--6200304	13	1.9	13	100	0	50	20	24	40	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6200303--6200338	13	2.8	13	95	0	63	13	16	50	19	1.79
6200283--6200341	31	1.9	31	92	0	100	16	18	47	16	1.83
6200285--6200325	18	2.3	18	91	0	64	12	19	48	19	1.80
6216003--6216034	16	2.0	16	100	0	64	56	25	0	18	1.42
6216865--6216936	35	2.0	36	94	2	128	20	9	18	51	1.74
6226372--6226443	31	2.3	31	88	4	101	31	12	9	45	1.74
6227002--6227058	21	2.8	21	76	7	55	56	1	3	38	1.27
6227619--6227659	21	2.0	21	95	0	73	41	12	0	46	1.41
6228281--6228317	19	1.9	19	89	10	58	48	0	0	51	1.00
6228911--6228965	23	2.3	23	84	3	65	54	18	5	21	1.63
6228975--6229023	24	2.0	24	100	0	98	55	20	8	16	1.66
6231985--6232080	28	3.4	28	68	11	79	46	2	2	48	1.25
6233680--6233715	14	2.6	14	100	0	72	22	25	0	52	1.47
6235302--6235389	39	2.3	39	87	0	122	32	25	23	18	1.97
6236719--6236814	41	2.3	40	82	10	106	20	17	23	37	1.94
6236905--6236971	6	11.2	6	100	0	134	34	32	0	32	1.58
6236968--6236994	6	4.5	6	100	0	54	33	51	14	0	1.43
6237603--6237670	34	2.0	34	97	0	127	35	23	19	22	1.96
6237666--6237757	20	4.6	20	98	0	175	43	21	26	8	1.81
6241153--6241222	23	3.0	23	79	10	88	25	24	24	25	2.00
6241241--6241273	17	1.9	17	100	0	66	30	24	18	27	1.98
6243002--6243054	7	7.4	7	84	2	70	50	33	0	15	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6243002--6243066	14	4.6	14	82	1	67	49	32	0	18	1.48
6243002--6243066	21	3.0	21	84	2	85	49	32	0	18	1.48
6246825--6246894	27	2.6	26	78	13	70	55	2	2	38	1.29
6247911--6247959	2	24.5	2	100	0	98	48	0	0	51	1.00
6248256--6248293	14	2.7	14	88	8	51	60	0	0	39	0.97
6252584--6252729	60	2.4	60	84	8	190	34	21	5	38	1.77
6252850--6253037	60	3.2	60	79	5	211	42	5	21	30	1.77
6255001--6255048	16	2.9	16	84	6	60	35	4	31	29	1.76
6255602--6255690	38	2.3	38	90	5	135	39	39	10	11	1.75
6263574--6263640	30	2.2	30	83	0	80	14	28	22	34	1.94
6266705--6266774	32	2.2	32	86	0	95	22	22	28	25	1.99
6266820--6266864	24	2.0	23	83	16	58	35	15	8	40	1.79
6276858--6276918	23	2.7	23	94	0	104	24	27	27	19	1.99
6282408--6282548	75	1.9	72	84	9	187	46	14	12	25	1.80
6283870--6283970	41	2.5	41	93	0	166	16	9	21	51	1.74
6284103--6284152	14	3.9	14	75	20	63	64	14	8	14	1.50
6284088--6284154	24	2.8	24	93	0	107	61	13	8	16	1.56
6286851--6286902	15	3.4	16	81	7	63	25	1	1	71	1.07
6286859--6286936	8	9.4	8	73	16	52	29	1	1	67	1.06
6286889--6286937	17	2.9	17	80	17	57	34	0	0	65	0.93
6287112--6287159	3	16.0	3	100	0	96	0	66	0	33	0.92
6287441--6287465	3	8.3	3	100	0	50	68	0	32	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6290650--6290705	28	2.0	28	96	0	103	17	37	28	16	1.91
6292600--6292626	13	2.1	13	100	0	54	37	14	25	22	1.93
6292637--6292663	4	6.8	4	100	0	54	25	0	0	74	0.83
6293123--6294114	4	248.0	4	94	0	1475	23	3	26	46	1.68
6297707--6297837	26	4.9	26	72	11	104	38	15	10	35	1.82
6297651--6297933	81	3.5	80	90	3	435	37	14	9	38	1.78
6297894--6298047	65	2.3	65	84	4	184	40	14	7	37	1.74
6298019--6298074	26	2.1	27	83	9	71	39	10	8	41	1.71
6297844--6298303	159	2.9	159	84	5	615	39	14	7	37	1.75
6298046--6298209	65	2.5	68	85	5	201	40	12	7	39	1.72

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