genome.fa.s9639.2.7.7.80.10.50.1000.21.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   52   53   54   55   56   57   58   59   60   61   62   

This is table  21  of  62  ( 7398 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)
4522449--4522559	32	3.5	32	86	1	134	34	15	7	43	1.74
4522465--4522552	32	2.8	32	91	1	142	30	13	9	46	1.74
4522320--4522658	169	2.0	171	83	5	434	34	17	6	40	1.77
4526973--4527034	17	3.6	17	100	0	124	24	12	32	30	1.93
4527708--4527961	81	3.1	81	90	1	384	35	11	23	29	1.90
4528019--4528401	45	8.5	45	88	0	525	46	9	22	21	1.81
4533742--4534057	45	7.0	45	91	0	517	43	11	22	22	1.85
4535878--4536099	57	3.9	57	89	1	322	37	18	8	36	1.81
4536424--4536476	22	2.5	22	81	6	65	30	26	11	32	1.91
4540008--4540042	17	2.1	17	94	0	61	25	20	17	37	1.94
4552856--4553011	31	5.0	31	92	1	251	38	23	17	20	1.93
4556843--4556967	31	4.0	31	93	2	198	37	22	19	20	1.94
4559898--4559954	22	2.6	22	85	0	78	15	10	36	36	1.82
4560572--4560611	21	2.0	21	90	5	64	60	2	0	37	1.11
4560616--4560648	15	2.2	15	89	10	50	42	0	0	57	0.98
4560730--4560788	26	2.3	27	91	8	104	35	28	6	28	1.83
4565348--4565623	122	2.3	121	83	8	344	42	10	16	31	1.81
4566049--4566089	20	2.0	20	90	4	64	51	0	14	34	1.43
4579572--4579608	19	1.9	19	100	0	74	56	10	21	10	1.64
4581929--4581978	26	1.9	26	91	0	82	30	16	10	44	1.80
4582199--4582259	30	1.9	33	84	15	85	37	0	4	57	1.20
4582790--4582833	2	22.5	2	95	4	81	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4582838--4582899	21	2.8	23	83	11	76	50	1	0	48	1.10
4582923--4582967	18	2.4	18	86	13	65	51	2	4	42	1.34
4589086--4589123	20	1.9	20	94	0	67	31	15	21	31	1.94
4603559--4603676	58	2.1	57	85	1	155	31	22	24	21	1.98
4612412--4612441	13	2.3	13	100	0	60	86	0	0	13	0.57
4612410--4612448	8	5.4	8	77	22	50	87	0	0	12	0.55
4612410--4612464	20	2.6	21	88	8	76	81	0	3	14	0.82
4613174--4613435	1	262.0	1	67	0	146	83	0	16	0	0.64
4613131--4613435	7	44.7	7	88	9	397	82	0	16	0	0.71
4613995--4614107	45	2.5	45	88	1	163	30	18	12	38	1.88
4614309--4614423	43	2.7	43	84	2	133	30	17	20	32	1.95
4615101--4615138	19	2.1	18	90	9	60	44	5	7	42	1.56
4615188--4615229	20	2.1	20	90	0	66	23	14	4	57	1.56
4620927--4621165	41	5.8	40	69	11	117	40	16	16	27	1.89
4620958--4621141	82	2.2	82	75	9	194	40	16	14	28	1.88
4622401--4622471	21	3.5	20	88	1	61	39	18	26	15	1.90
4622416--4622471	21	2.7	21	97	0	103	39	19	26	14	1.90
4622460--4622614	20	7.7	20	84	6	170	32	24	18	23	1.97
4622457--4622614	81	1.9	82	85	3	221	34	24	18	23	1.96
4622480--4622614	61	2.2	61	86	0	198	33	24	18	23	1.97
4622776--4622817	22	1.9	22	95	0	75	21	42	16	19	1.89
4623082--4623139	20	2.9	20	78	0	53	17	15	24	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4623271--4623325	25	2.2	24	78	15	58	20	9	18	52	1.71
4624078--4624107	15	1.9	16	93	6	53	20	3	13	63	1.43
4624448--4624492	18	2.5	18	88	0	72	26	44	15	13	1.83
4624943--4625009	20	3.4	20	81	2	73	38	23	22	14	1.92
4624998--4625055	14	3.9	14	75	16	62	48	22	17	12	1.80
4624982--4625074	32	2.8	33	93	3	161	46	20	19	13	1.84
4625067--4625109	19	2.1	21	83	8	54	9	18	27	44	1.80
4625084--4625165	32	2.5	33	90	2	130	10	17	20	51	1.75
4625089--4625146	14	3.9	14	70	16	53	10	15	22	51	1.73
4625137--4625224	19	4.5	20	88	1	99	14	22	20	42	1.89
4625166--4625221	20	2.8	20	91	2	87	16	26	23	33	1.95
4625147--4625221	39	1.9	39	83	5	98	16	25	21	37	1.93
4625587--4625674	41	2.1	42	85	2	124	21	42	14	21	1.89
4627086--4627121	14	2.6	14	90	0	54	30	0	22	47	1.52
4627258--4627325	19	3.8	19	81	14	92	48	17	20	13	1.80
4627352--4627439	20	4.4	20	75	5	97	15	20	25	38	1.92
4627652--4627715	20	3.2	20	75	2	65	20	15	21	42	1.89
4627974--4628007	12	2.9	12	86	4	52	17	41	5	35	1.74
4628562--4628615	24	2.2	24	86	0	72	27	14	16	40	1.88
4628790--4628826	12	3.1	12	100	0	74	72	0	27	0	0.84
4631103--4631229	33	3.8	33	84	4	184	44	19	21	14	1.87
4631104--4631236	66	2.0	66	94	0	230	42	19	21	16	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4631229--4631318	33	2.7	33	92	0	144	14	22	20	43	1.87
4631260--4631318	19	3.4	19	71	22	65	11	22	20	45	1.83
4631244--4631300	14	3.7	14	70	20	51	10	24	21	43	1.83
4631425--4631461	14	2.6	14	91	0	65	45	24	0	29	1.53
4632816--4633009	42	4.6	41	72	9	149	22	18	35	23	1.96
4632816--4632882	21	3.2	21	68	4	55	19	20	35	23	1.95
4632846--4633016	84	2.0	84	97	0	324	23	16	37	22	1.94
4633240--4633424	91	2.0	90	90	6	291	48	18	11	21	1.80
4635067--4635260	19	10.1	19	92	2	316	45	19	22	12	1.83
4635256--4635299	18	2.4	19	88	3	63	9	15	27	47	1.76
4635852--4635904	20	2.7	20	93	0	88	26	20	28	24	1.99
4635913--4635986	20	3.7	20	98	0	139	27	17	24	31	1.97
4635853--4636007	81	1.9	81	80	2	177	24	19	23	32	1.98
4638926--4638963	18	2.1	18	95	0	67	15	23	5	55	1.61
4639887--4639939	20	2.7	20	100	0	106	35	22	16	24	1.95
4647459--4647515	20	2.8	20	81	7	62	35	19	15	29	1.93
4648682--4648794	32	3.5	32	85	2	147	37	13	16	32	1.88
4676256--4676295	20	2.0	20	90	0	62	32	12	25	30	1.92
4676620--4676756	56	2.5	55	95	3	247	36	11	19	32	1.88
4676808--4676844	18	2.1	18	100	0	74	5	16	21	56	1.59
4682639--4682686	24	2.0	24	100	0	96	20	25	12	41	1.87
4683245--4683319	38	2.0	37	84	5	98	48	4	1	46	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4684821--4684875	22	2.5	22	75	3	56	41	14	18	25	1.88
4694345--4694415	37	1.9	37	94	2	126	33	7	5	53	1.51
4694702--4694747	23	1.9	25	91	8	78	34	0	0	65	0.93
4694705--4694757	23	2.3	23	80	6	63	39	1	0	58	1.09
4699073--4699129	24	2.4	24	85	5	80	38	36	10	14	1.80
4699470--4699500	16	1.9	16	100	0	62	38	0	19	41	1.51
4703941--4704142	40	5.1	40	93	0	350	24	16	26	32	1.96
4704247--4704412	45	3.7	45	90	1	244	41	8	21	28	1.82
4704643--4704682	21	1.9	21	89	0	62	22	17	30	30	1.97
4711097--4711254	40	4.1	40	88	4	234	24	15	26	34	1.94
4711359--4711528	45	3.8	45	85	4	227	43	8	20	28	1.80
4711359--4711523	90	1.8	90	88	5	253	42	8	20	28	1.81
4711920--4711963	21	2.1	21	95	0	79	29	20	20	29	1.98
4718385--4718506	40	3.0	40	98	0	235	22	16	27	33	1.95
4718611--4718780	45	3.8	45	92	1	270	40	8	22	28	1.83
4719201--4719349	67	2.2	67	89	0	226	28	21	16	33	1.95
4723381--4723539	79	2.0	79	100	0	318	26	16	26	30	1.97
4728923--4728953	13	2.4	13	100	0	62	12	19	32	35	1.90
4733444--4733563	40	3.0	40	87	0	159	22	27	22	27	1.99
4738446--4738481	3	12.0	3	100	0	72	66	0	0	33	0.92
4739696--4739838	36	4.0	36	89	7	197	44	14	16	25	1.85
4743118--4743241	18	6.9	18	96	0	221	17	26	33	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4750553--4750608	20	2.9	19	75	19	62	66	1	8	23	1.30
4751019--4751065	23	2.0	23	84	15	62	70	0	2	27	0.99
4751482--4751582	37	2.8	36	84	4	121	30	13	14	40	1.85
4752335--4753610	106	12.0	106	91	0	1955	22	18	24	34	1.96
4754575--4754627	22	2.4	22	96	0	97	26	9	28	35	1.87
4755244--4755295	16	3.5	15	80	19	65	0	11	7	80	0.89
4755250--4755297	15	3.1	15	83	13	62	0	12	6	81	0.87
4755245--4755292	18	2.7	18	83	6	53	0	12	6	81	0.87
4759788--4759842	19	2.9	19	74	15	60	65	1	9	23	1.31
4759927--4760074	22	6.6	21	66	23	63	66	2	2	29	1.17

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   52   53   54   55   56   57   58   59   60   61   62