genome.fa.s1129.2.7.7.80.10.50.1000.18.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  18  of  89  ( 10573 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)
3583378--3583547	91	1.9	90	85	3	234	28	15	27	28	1.96
3583642--3583770	65	2.0	64	86	4	179	41	9	18	30	1.82
3589982--3590011	5	6.2	5	92	7	53	80	0	0	20	0.72
3590991--3591052	23	2.7	24	80	14	69	8	11	8	72	1.28
3595231--3595269	6	6.7	6	82	5	53	2	15	0	82	0.79
3600961--3601103	72	2.0	72	94	0	250	44	12	2	39	1.57
3602804--3602844	6	7.0	6	94	5	75	17	0	82	0	0.66
3602808--3602844	11	3.3	11	96	3	65	16	0	83	0	0.64
3605496--3605539	21	2.1	21	82	0	52	4	54	0	40	1.21
3606631--3606822	65	3.0	64	77	11	178	27	18	23	31	1.97
3613285--3613324	21	1.9	21	89	0	62	30	7	7	55	1.56
3615272--3615481	65	3.3	63	73	11	174	26	16	23	33	1.96
3616602--3616658	30	2.0	28	89	6	87	59	14	10	15	1.60
3617225--3617275	21	2.5	20	75	9	57	50	1	1	45	1.24
3628278--3628317	20	2.0	21	95	5	73	27	15	22	35	1.94
3629797--3629839	20	2.2	20	86	0	59	27	11	2	58	1.46
3631707--3631760	24	2.2	24	93	0	90	31	5	20	42	1.75
3631707--3631767	24	2.5	24	89	0	77	29	8	21	40	1.82
3645982--3646068	35	2.5	34	78	12	88	55	11	6	26	1.61
3651206--3651267	31	2.0	32	87	3	90	50	4	17	27	1.67
3668511--3669000	161	3.0	162	89	0	714	34	11	21	32	1.90
3668511--3669000	81	6.1	81	87	0	642	34	11	21	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3671497--3671593	42	2.3	42	92	1	160	31	10	25	31	1.89
3671996--3672081	30	2.9	29	78	11	84	45	4	12	37	1.63
3686995--3687022	3	9.3	3	100	0	56	32	0	0	67	0.91
3693473--3693520	19	2.5	19	100	0	96	68	6	4	20	1.28
3701526--3701695	44	3.9	43	82	2	196	26	21	9	42	1.83
3702052--3702151	22	4.6	22	75	14	100	28	24	13	35	1.92
3707862--3707999	64	2.2	63	77	5	152	29	15	21	32	1.95
3708012--3708049	20	1.9	20	88	0	58	21	15	31	31	1.94
3710650--3710709	21	2.7	22	79	7	77	26	21	23	28	1.99
3715293--3715452	65	2.5	65	86	1	223	30	15	22	31	1.94
3715466--3715503	20	1.9	20	94	0	67	18	15	34	31	1.92
3717012--3717269	44	5.9	44	89	0	356	24	20	12	43	1.86
3717767--3717815	21	2.5	21	87	9	68	32	28	12	26	1.92
3721977--3722041	23	2.8	23	83	6	69	24	4	9	61	1.45
3728217--3728256	18	2.2	19	95	4	73	20	20	15	45	1.86
3730417--3730444	14	2.0	14	100	0	56	14	21	42	21	1.88
3731907--3731988	21	3.8	21	75	10	67	14	24	37	23	1.92
3731930--3731990	20	2.9	21	82	7	70	14	26	36	22	1.93
3742645--3742698	21	2.6	21	82	11	67	31	20	20	27	1.97
3750524--3750624	23	4.4	23	73	9	82	38	22	21	16	1.93
3750572--3750624	22	2.4	22	81	12	63	37	22	26	13	1.91
3750701--3750888	45	4.2	45	85	0	223	38	20	7	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3752364--3752764	54	7.4	54	90	0	604	37	15	14	33	1.87
3759280--3759516	54	4.4	52	84	5	276	34	16	15	34	1.90
3759280--3759516	108	2.2	108	86	3	325	34	16	15	34	1.90
3766120--3766145	4	6.5	4	100	0	52	23	0	0	76	0.78
3772086--3772124	20	2.0	20	89	0	60	33	10	23	33	1.88
3785425--3785463	4	9.8	4	88	0	60	79	0	20	0	0.73
3785425--3785463	16	2.4	16	100	0	78	79	0	20	0	0.73
3786977--3787096	23	5.3	23	81	2	145	25	16	23	34	1.95
3789122--3789234	23	4.9	23	87	0	154	25	20	23	30	1.99
3793516--3793559	19	2.3	19	88	7	63	56	6	2	34	1.38
3793991--3794033	6	7.2	6	83	0	50	67	0	4	27	1.10
3793991--3794032	12	3.5	12	86	0	57	66	0	4	28	1.12
3794326--3794374	25	2.0	25	87	0	71	65	2	2	30	1.15
3795334--3795395	2	31.0	2	100	0	124	50	0	0	50	1.00
3795404--3795437	17	2.0	17	88	11	52	64	0	5	29	1.17
3795440--3795475	16	2.2	16	90	9	56	63	0	0	36	0.94
3797525--3797585	3	20.0	3	77	9	61	60	1	1	36	1.16
3797950--3798374	73	5.8	73	97	0	805	37	13	18	30	1.89
3798413--3798741	166	2.0	167	89	1	509	37	12	13	36	1.82
3800586--3800764	77	2.4	76	81	4	191	32	21	15	30	1.95
3809063--3809301	132	1.8	132	81	4	304	44	9	9	37	1.68
3809421--3809446	2	13.0	2	100	0	52	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)
3809456--3809489	17	2.0	17	88	11	52	64	0	5	29	1.17
3809509--3809546	20	1.9	20	89	10	60	60	2	2	34	1.24
3809509--3809547	21	1.9	20	89	5	60	61	2	2	33	1.23
3810805--3810865	3	20.0	3	77	9	61	60	1	1	36	1.16
3815303--3815647	45	7.7	45	87	1	451	28	21	10	40	1.85
3816058--3816099	20	2.1	20	86	0	57	30	28	11	28	1.92
3818488--3818514	12	2.2	12	100	0	54	44	7	7	40	1.60
3820543--3822028	616	2.4	615	97	0	2776	26	18	14	40	1.88
3823471--3823528	29	2.0	29	96	0	107	29	20	12	37	1.89
3833020--3833057	18	2.2	17	90	4	58	23	31	18	26	1.97
3833193--3833245	20	2.6	21	85	8	74	28	20	18	32	1.97
3836313--3836382	32	2.3	29	80	7	68	72	4	5	17	1.20
3836554--3836608	23	2.5	20	81	16	65	67	1	1	29	1.11
3837996--3838040	12	3.7	12	82	11	56	57	0	0	42	0.98
3838252--3838293	20	2.1	20	95	0	75	35	16	21	26	1.94
3838351--3838879	105	5.0	105	96	0	950	22	18	25	34	1.96
3850220--3850277	15	3.9	15	74	14	50	75	5	3	15	1.11
3850448--3850502	23	2.5	20	81	16	65	67	1	1	29	1.11
3851889--3851935	12	4.2	12	79	15	57	57	0	0	42	0.98
3852370--3852429	28	2.1	28	100	0	120	48	10	21	20	1.78
3852608--3852658	22	2.3	22	86	6	68	21	3	0	74	0.98
3852606--3852664	17	3.5	17	68	13	50	22	3	0	74	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3853638--3853671	6	5.7	6	100	0	68	47	52	0	0	1.00
3854261--3854334	37	2.0	36	84	7	96	29	47	8	14	1.73
3861606--3861740	43	3.2	43	81	1	155	34	17	20	28	1.95
3861743--3861827	44	2.0	43	88	2	125	38	11	12	36	1.81
3862758--3862789	11	2.9	11	100	0	64	25	56	9	9	1.61
3864845--3864882	20	1.9	20	94	0	67	31	31	15	21	1.94
3864910--3864961	19	2.7	19	84	0	77	32	30	17	19	1.95
3872978--3873027	25	2.0	25	96	3	93	36	8	14	42	1.74
3873472--3873575	45	2.3	45	86	0	145	33	18	15	32	1.92
3873436--3873639	109	1.9	110	90	1	329	34	19	14	31	1.92
3873517--3873706	65	3.0	64	84	1	236	33	20	15	31	1.93
3877892--3877933	21	2.0	21	86	4	59	21	9	40	28	1.84
3877996--3878047	20	2.6	20	100	0	104	32	25	15	26	1.95
3879784--3879835	21	2.5	21	100	0	104	34	3	25	36	1.74
3880980--3881021	21	1.9	23	85	9	61	45	2	14	38	1.58
3881218--3881271	22	2.5	22	96	0	99	25	24	11	38	1.88
3881487--3881525	2	19.5	2	100	0	78	48	0	0	51	1.00
3883991--3884116	49	2.5	49	78	13	141	45	6	3	44	1.47
3887212--3887248	17	2.2	17	95	0	65	18	51	10	18	1.75
3888534--3888569	14	2.6	14	86	0	54	50	0	0	50	1.00
3893084--3893134	3	16.7	3	80	11	59	35	1	0	62	1.06
3894058--3894097	16	2.4	16	91	4	62	85	0	10	5	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3896891--3896922	15	2.1	15	100	0	64	18	6	40	34	1.76
3898734--3898779	3	15.7	3	86	4	67	30	0	4	65	1.12
3911153--3911196	15	3.0	15	81	15	56	29	4	2	63	1.26
3914735--3914819	45	1.9	44	80	7	100	38	15	25	20	1.91
3920133--3920166	15	2.3	15	100	0	68	23	23	8	44	1.81
3921812--3921837	9	2.9	9	100	0	52	65	0	23	11	1.25
3928155--3928232	21	3.7	21	75	0	66	38	21	15	24	1.92
3928864--3928918	21	2.7	21	83	11	69	21	23	18	36	1.95
3932208--3932261	23	2.5	22	81	6	56	27	25	24	22	2.00
3932228--3932272	23	2.0	23	91	4	74	22	24	31	22	1.99

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   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89