genome.fa.s1129.2.7.7.80.10.50.1000.73.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  73  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)
17430662--17430729	25	2.8	25	82	8	70	19	8	4	67	1.35
17430677--17430729	25	2.2	24	90	6	81	18	5	3	71	1.21
17430682--17430730	13	3.9	13	75	20	50	20	6	4	69	1.27
17437308--17437360	25	2.2	24	86	6	72	16	7	3	71	1.24
17437313--17437361	13	3.9	13	75	20	50	20	6	4	69	1.27
17440403--17440548	64	2.3	63	81	5	177	30	16	21	30	1.95
17443112--17443149	20	1.9	20	88	0	58	34	5	52	7	1.53
17443216--17443316	23	4.6	22	75	14	68	25	21	24	27	1.99
17443233--17443345	24	4.9	24	81	9	137	25	21	24	28	1.99
17443216--17443345	48	2.8	46	79	10	135	26	21	24	27	1.99
17449063--17449217	63	2.4	64	78	9	174	29	13	22	34	1.92
17452282--17452371	31	2.9	31	85	1	119	54	0	28	16	1.43
17452664--17452704	14	2.8	15	82	14	50	46	0	0	53	1.00
17467048--17467086	14	3.0	13	92	7	62	0	12	2	84	0.72
17467048--17467087	13	3.0	13	85	7	53	0	12	5	82	0.82
17471083--17471122	20	2.0	20	85	0	53	32	12	7	47	1.69
17471181--17471262	35	2.3	35	95	0	146	31	25	18	24	1.97
17474737--17474828	29	3.1	29	87	10	125	59	5	16	18	1.55
17474751--17474829	29	2.7	29	92	2	131	60	2	17	18	1.47
17476481--17476956	134	3.6	132	80	7	464	26	17	30	25	1.97
17476742--17476980	131	1.8	130	85	5	338	25	16	34	23	1.95
17477042--17477152	30	3.8	28	81	15	111	43	15	11	29	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17477111--17477283	65	2.6	65	82	7	206	42	15	13	27	1.85
17477952--17477990	2	20.0	2	84	5	53	43	0	2	53	1.14
17478023--17478457	37	12.0	37	78	11	343	45	4	5	44	1.47
17477985--17478465	112	4.4	108	77	16	351	45	3	6	43	1.49
17478023--17478460	75	6.0	73	78	11	411	45	4	5	44	1.47
17478319--17478486	38	4.8	38	74	17	136	45	2	7	45	1.44
17478252--17478486	69	3.5	67	78	13	257	45	2	6	44	1.43
17478501--17478525	3	8.3	3	100	0	50	32	0	0	68	0.90
17478501--17478574	24	3.2	23	74	10	64	28	2	2	66	1.19
17485014--17486120	165	6.7	164	87	2	1420	30	24	20	24	1.98
17485014--17486124	84	13.5	84	77	6	963	30	24	19	24	1.98
17486688--17486728	2	21.0	2	90	5	66	46	0	2	51	1.14
17486761--17487200	38	12.0	37	81	11	471	44	4	6	44	1.49
17486761--17487229	74	6.4	72	84	10	484	44	4	6	44	1.48
17487137--17487233	30	3.2	29	76	16	81	45	3	6	45	1.44
17487263--17487313	24	2.2	23	82	10	59	27	1	3	66	1.20
17487249--17487317	28	2.6	26	80	13	77	24	2	2	69	1.16
17496980--17497029	21	2.5	21	70	6	50	34	16	18	32	1.92
17500198--17500276	37	2.1	37	83	6	97	36	11	22	29	1.89
17500357--17500419	32	2.0	32	87	0	90	31	20	12	34	1.90
17501435--17501492	17	3.3	18	81	13	68	1	12	8	77	1.06
17502028--17502092	32	2.0	32	100	0	130	33	9	24	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17503820--17503909	27	3.1	27	82	7	90	60	6	16	16	1.56
17505428--17505606	29	6.1	29	90	1	286	35	6	21	36	1.79
17506616--17506662	24	1.9	25	95	4	87	31	6	17	44	1.73
17506617--17506673	24	2.3	24	87	3	78	31	7	15	45	1.73
17511028--17511063	17	2.1	17	89	0	54	41	16	19	22	1.90
17512991--17513027	19	1.9	19	94	0	65	21	27	24	27	1.99
17513069--17513144	29	2.6	29	89	0	116	34	3	23	38	1.74
17514037--17514184	31	4.7	31	79	6	138	16	29	29	25	1.97
17514037--17514187	63	2.4	61	80	6	160	16	28	29	25	1.97
17514539--17514683	64	2.3	63	83	11	179	27	26	16	28	1.97
17519822--17519902	24	3.6	23	74	17	80	23	25	20	29	1.99
17526691--17527213	41	12.7	41	85	2	593	27	20	17	34	1.95
17531185--17531416	42	5.4	43	81	4	265	27	21	19	31	1.97
17531177--17531403	85	2.7	85	82	6	282	26	20	18	34	1.96
17535191--17535282	46	2.0	46	100	0	184	23	26	26	23	2.00
17539022--17539380	178	2.0	181	98	1	697	41	6	23	28	1.79
17543935--17544023	23	3.9	23	84	0	97	19	23	25	31	1.98
17544646--17544680	16	2.2	16	90	5	54	40	0	17	42	1.49
17559170--17559249	42	1.9	42	82	10	101	56	2	3	37	1.31
17559104--17559369	143	1.9	143	79	9	310	49	6	4	39	1.51
17560676--17560728	3	18.0	3	84	3	72	64	0	0	35	0.94
17561327--17561422	42	2.3	41	78	3	111	34	18	21	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17561356--17561427	20	3.5	20	70	7	54	40	19	20	19	1.92
17561587--17561683	42	2.3	42	80	1	115	34	21	19	24	1.97
17561128--17562206	260	4.2	260	89	0	1631	32	19	17	30	1.95
17564648--17564783	72	1.9	72	92	0	227	33	19	22	24	1.97
17567279--17567330	6	8.2	6	75	12	50	55	11	15	17	1.68
17567225--17567330	39	2.7	39	81	8	117	55	11	16	16	1.68
17571017--17571077	16	3.6	16	76	14	61	45	0	0	54	1.00
17571044--17571111	3	23.0	3	75	3	57	57	0	0	42	0.98
17571044--17571110	18	3.8	18	82	2	82	56	0	0	43	0.99
17571044--17571104	24	2.6	24	84	2	88	54	0	0	45	1.00
17575329--17575362	16	2.1	16	88	0	50	50	0	5	44	1.26
17576565--17576710	45	3.2	45	92	0	229	22	23	13	41	1.88
17583440--17583721	45	6.3	45	91	0	431	20	23	11	45	1.83
17584085--17584282	94	2.1	94	85	3	265	24	20	13	40	1.89
17587408--17587434	14	1.9	14	100	0	54	18	14	7	59	1.58
17590306--17590345	18	2.3	18	86	4	55	62	7	0	30	1.23
17601138--17601166	14	2.0	15	93	6	51	62	27	3	6	1.37
17609019--17609118	26	3.9	26	92	6	152	30	21	21	28	1.98
17610122--17610156	15	2.3	15	90	0	52	22	40	17	20	1.92
17611122--17611157	17	2.1	17	89	0	54	36	38	5	19	1.75
17616696--17616722	12	2.2	12	100	0	54	62	7	0	29	1.22
17618081--17618127	4	11.0	4	91	8	67	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17618074--17618147	5	15.8	5	81	16	54	75	0	1	22	0.88
17618075--17618146	21	3.1	23	78	15	53	75	0	1	23	0.89
17618218--17618430	37	5.7	36	76	13	173	42	8	6	42	1.61
17618285--17618430	36	3.9	37	79	13	167	41	8	5	43	1.59
17618356--17618488	60	2.2	61	93	4	227	41	9	4	45	1.56
17618396--17618454	24	2.5	24	91	8	95	42	8	5	44	1.57
17619279--17619373	33	2.8	33	85	4	120	28	15	18	36	1.92
17624038--17624133	33	2.9	33	93	1	165	23	15	23	36	1.94
17624038--17624158	33	3.5	34	87	5	129	23	15	23	37	1.93
17626443--17626561	24	5.0	24	86	4	159	39	18	13	28	1.89
17629050--17629103	17	3.2	17	72	27	60	18	48	22	11	1.79
17629021--17629103	34	2.4	34	93	0	139	19	44	21	14	1.86
17629111--17629246	29	4.7	29	91	1	202	31	8	20	39	1.82
17629208--17629264	29	2.0	29	85	0	78	40	1	15	42	1.58
17632551--17632586	2	18.5	2	88	5	56	47	2	0	50	1.15
17633444--17633475	14	2.4	13	94	5	55	81	0	0	18	0.70
17634998--17635029	2	16.5	2	93	6	57	53	0	0	46	1.00
17635090--17635402	155	2.0	156	99	0	619	32	20	16	30	1.94
17649115--17649267	61	2.5	61	93	0	252	30	26	16	26	1.97
17649602--17649647	24	1.9	24	95	0	83	43	10	13	32	1.78
17651358--17651427	29	2.3	31	85	4	90	30	17	10	42	1.81
17655521--17655572	20	2.5	21	85	14	65	50	7	3	38	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17656565--17656613	24	2.0	24	92	0	80	44	10	12	32	1.75
17657800--17657824	11	2.3	11	100	0	50	32	16	0	52	1.44
17658321--17658385	29	2.2	29	83	8	78	27	15	10	46	1.79
17658656--17658701	24	1.9	24	95	0	83	41	8	15	34	1.78
17659894--17659918	11	2.3	11	100	0	50	32	16	0	52	1.44
17660751--17660796	24	1.9	24	95	0	83	41	8	15	34	1.78
17662833--17662878	24	1.9	24	95	0	83	41	8	15	34	1.78
17664913--17664958	24	1.9	24	95	0	83	41	6	15	36	1.73
17666998--17667043	24	1.9	24	95	0	83	41	8	15	34	1.78
17669075--17669123	24	2.0	24	96	0	89	42	10	14	32	1.79

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