genome.fa.s7984.2.7.7.80.10.50.1000.19.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   63   64   
          65   

This is table  19  of  65  ( 7696 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)
3745748--3745968	64	3.5	64	82	7	218	26	18	20	34	1.96
3748978--3749007	2	15.0	2	100	0	60	50	0	0	50	1.00
3749421--3749513	30	3.1	30	85	1	125	33	24	19	22	1.97
3750436--3750656	64	3.5	64	82	7	227	27	19	19	33	1.96
3752014--3752072	27	2.1	28	84	3	75	28	5	10	55	1.54
3752148--3752281	72	1.9	71	83	10	175	33	9	4	52	1.55
3759148--3759369	44	5.1	43	82	3	239	31	17	20	31	1.95
3759148--3759349	86	2.3	86	86	1	269	32	17	19	30	1.95
3759148--3759392	130	1.9	130	81	1	294	32	17	20	30	1.95
3763738--3763796	28	2.1	28	93	0	100	28	28	8	33	1.87
3768801--3768975	42	4.2	43	71	15	109	33	19	16	31	1.94
3771565--3771607	21	2.0	21	81	0	50	27	30	25	16	1.97
3771635--3771672	20	1.9	20	88	0	58	23	34	31	10	1.89
3772422--3772639	103	2.1	103	95	1	393	26	13	22	36	1.92
3772655--3772721	23	2.9	23	81	0	62	25	20	22	31	1.98
3772677--3772723	23	2.0	23	87	0	67	25	19	23	31	1.98
3775092--3775142	2	25.5	2	100	0	102	49	0	0	50	1.00
3777353--3777390	20	1.9	20	88	0	58	23	34	31	10	1.89
3778153--3778362	103	2.0	103	93	0	357	26	12	24	37	1.91
3778391--3778450	23	2.6	23	86	0	75	23	18	25	33	1.97
3780885--3780942	24	2.4	24	88	0	80	24	17	34	24	1.96
3782159--3782210	20	2.5	21	84	3	70	61	0	23	15	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3793560--3793600	16	2.6	16	88	0	64	31	17	29	21	1.96
3795239--3795288	18	2.6	19	84	6	66	26	26	20	28	1.99
3797745--3797797	24	2.3	23	83	3	70	47	0	0	52	1.00
3797803--3797841	20	2.0	20	89	0	60	38	5	0	56	1.22
3797985--3798040	23	2.3	23	82	11	60	44	1	1	51	1.22
3798307--3798335	7	4.3	7	91	8	51	24	0	0	75	0.80
3798307--3798331	13	1.9	13	100	0	50	24	0	0	76	0.80
3799603--3799662	25	2.4	25	100	0	120	35	6	13	45	1.70
3799916--3799949	2	17.0	2	87	0	50	44	2	0	52	1.16
3801605--3801688	29	2.9	29	87	0	114	14	38	28	19	1.90
3801695--3801821	43	3.0	43	95	0	236	9	25	29	36	1.87
3801907--3801970	23	2.8	23	90	0	101	18	18	17	45	1.86
3802171--3802279	39	2.8	39	87	8	143	36	2	15	44	1.61
3802362--3802414	28	1.9	27	88	3	79	32	1	16	49	1.57
3802361--3802425	27	2.3	29	82	10	82	36	1	15	46	1.55
3802853--3802948	30	3.2	30	85	7	124	40	1	12	45	1.49
3802892--3802972	22	3.3	22	71	23	72	43	0	14	41	1.46
3802899--3802949	15	3.3	16	72	10	61	45	0	13	41	1.44
3802925--3802963	11	3.5	11	80	13	53	48	0	12	38	1.42
3803289--3803355	20	3.3	20	79	4	89	41	17	23	16	1.89
3803299--3803374	21	3.7	21	80	3	100	40	18	25	15	1.90
3803363--3803497	20	6.7	20	85	5	146	31	25	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3803286--3803374	41	2.2	41	100	0	178	41	16	24	16	1.89
3803360--3803476	61	1.9	61	87	0	171	34	24	17	23	1.96
3803685--3803728	22	2.0	22	90	0	70	22	45	13	18	1.84
3804167--3804221	25	2.2	24	78	15	58	20	9	18	52	1.71
3805350--3805394	18	2.5	18	88	0	72	26	44	15	13	1.83
3805876--3805921	20	2.3	20	88	0	65	36	26	21	15	1.93
3805915--3805996	19	4.6	19	75	17	95	45	19	20	14	1.85
3806008--3806065	14	3.9	14	76	24	64	8	18	25	46	1.78
3806004--3806081	32	2.4	33	93	2	131	10	20	24	44	1.82
3806075--3806121	20	2.3	20	88	0	67	17	23	23	36	1.95
3807989--3808024	14	2.6	14	90	0	54	30	0	22	47	1.52
3808131--3808184	14	3.5	14	77	22	63	48	20	20	11	1.80
3808112--3808189	33	2.4	33	91	0	120	42	19	23	15	1.89
3808208--3808285	20	3.9	20	98	0	147	15	23	24	37	1.93
3809331--3809378	24	2.0	24	91	0	78	29	16	16	37	1.91
3809332--3809390	24	2.5	24	85	0	73	28	15	18	37	1.91
3809565--3809589	12	2.1	12	100	0	50	72	0	28	0	0.86
3811859--3811985	33	3.8	33	86	4	193	43	19	22	14	1.88
3811863--3811992	66	2.0	66	96	0	242	43	19	21	16	1.88
3812168--3812204	14	2.6	14	91	0	65	45	24	0	29	1.53
3813542--3813608	21	3.2	21	68	4	55	19	20	35	23	1.95
3813542--3813663	42	2.9	41	79	7	111	22	18	36	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3815661--3815721	20	3.1	19	79	9	68	44	18	24	13	1.85
3815686--3815773	33	2.6	33	94	1	149	38	23	26	11	1.89
3815783--3815827	19	2.4	19	88	0	72	6	15	24	53	1.66
3816380--3816541	41	3.8	41	70	9	135	25	17	24	33	1.96
3816359--3816490	41	3.0	46	67	12	130	28	17	24	29	1.97
3816359--3816534	88	2.0	88	100	0	352	27	17	23	31	1.97
3816508--3816561	20	2.7	20	97	0	99	25	18	24	31	1.97
3816468--3816582	61	1.9	61	81	3	142	21	20	23	34	1.96
3816632--3816672	21	2.0	21	85	0	55	34	31	17	17	1.93
3818958--3819078	59	2.1	56	89	4	179	50	7	3	38	1.47
3818978--3819046	21	3.1	21	81	12	59	53	5	1	39	1.34
3818969--3819046	24	3.3	24	76	18	67	52	6	2	38	1.41
3819161--3819433	14	20.9	13	70	23	152	45	9	2	43	1.49
3819161--3819424	26	10.6	26	76	12	216	44	9	2	43	1.49
3819161--3819326	49	3.3	50	83	5	210	43	8	3	45	1.49
3819161--3819474	98	3.2	98	83	7	363	45	9	2	43	1.48
3819402--3819468	35	2.0	33	91	5	107	53	10	0	35	1.35
3819412--3819469	8	6.3	9	75	22	50	51	10	0	37	1.36
3819398--3819459	16	3.9	16	75	17	58	53	9	0	37	1.34
3819409--3819465	19	3.2	19	69	23	59	54	8	0	36	1.32
3820059--3820121	28	2.2	30	94	5	112	57	12	0	30	1.36
3820492--3820551	23	2.6	23	100	0	120	26	25	26	21	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3820683--3820747	32	2.0	32	93	0	112	13	33	21	30	1.92
3820739--3820798	29	2.1	29	96	0	111	10	33	33	23	1.88
3821443--3821477	13	2.5	14	86	13	54	40	2	0	57	1.14
3821447--3821477	13	2.3	14	94	5	55	38	3	0	58	1.15
3824084--3824127	23	1.9	23	86	9	63	25	34	11	29	1.91
3836143--3836181	20	2.0	20	89	0	60	33	5	5	56	1.43
3845169--3845293	21	5.8	22	76	15	93	32	26	17	23	1.96
3845163--3845250	23	3.9	23	78	8	101	30	25	20	23	1.98
3851441--3851500	23	2.7	23	89	2	77	35	28	18	18	1.94
3851448--3851500	23	2.3	23	93	0	88	32	28	18	20	1.97
3851486--3851532	21	2.2	21	85	14	62	31	29	19	19	1.96
3852059--3852097	19	2.1	19	85	0	51	28	28	12	30	1.93
3854378--3854458	31	2.7	31	92	3	130	32	7	23	37	1.83
3856151--3856207	19	3.1	18	77	7	60	45	5	14	35	1.67
3856162--3856240	19	4.2	19	76	7	54	43	7	16	32	1.76
3856267--3856303	13	2.8	13	87	0	56	56	0	21	21	1.42
3862744--3862931	95	2.0	96	84	3	245	32	10	17	39	1.83
3863933--3863985	20	2.7	19	85	5	70	39	16	26	16	1.91
3864009--3864079	22	3.5	21	81	12	78	29	16	22	30	1.96
3864408--3864950	55	9.9	55	84	4	681	34	18	19	27	1.95
3865209--3865286	21	3.6	21	63	10	57	44	6	21	26	1.76
3869589--3869660	20	3.6	20	86	3	92	40	13	26	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3869684--3869737	22	2.7	19	76	15	63	33	18	16	31	1.93
3870014--3870054	22	1.9	21	85	14	57	36	2	12	48	1.54
3870072--3870607	55	9.8	55	89	1	767	34	18	19	26	1.95
3870072--3870601	217	2.4	218	88	2	794	34	19	19	26	1.96
3870820--3870891	23	3.2	23	63	11	58	41	5	25	27	1.77
3870823--3870896	21	3.4	21	67	17	60	44	5	22	27	1.74
3872193--3872264	37	1.9	38	83	13	96	58	9	4	27	1.48
3872998--3873037	15	2.7	15	92	0	62	27	25	27	20	1.99
3875730--3875829	31	3.2	31	85	1	119	30	31	25	14	1.94
3874419--3877262	943	3.0	942	96	0	5204	34	21	17	26	1.96

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   63   64   
          65