genome.fa.s9634.2.7.7.80.10.50.1000.67.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   

This is table  67  of  78  ( 9351 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)
13701909--13701944	18	2.0	18	94	0	63	16	2	25	55	1.55
13702900--13702936	18	2.1	18	89	0	56	51	10	5	32	1.60
13703141--13703179	20	2.0	20	100	0	78	15	15	25	43	1.86
13705750--13705801	24	2.2	24	92	0	86	40	17	19	23	1.91
13705926--13705960	12	2.9	12	91	0	52	14	0	22	62	1.31
13706555--13706592	16	2.5	15	84	12	51	65	0	5	28	1.14
13706749--13706860	20	5.7	20	76	12	97	28	13	22	35	1.92
13706889--13706954	20	3.3	20	78	4	71	24	15	33	27	1.95
13708169--13708195	11	2.5	11	100	0	54	33	18	29	18	1.95
13708191--13708398	65	3.2	65	78	8	201	26	18	24	31	1.97
13708363--13708418	20	2.8	20	97	0	103	17	16	35	30	1.92
13708862--13708892	2	15.5	2	100	0	62	51	0	0	48	1.00
13714258--13714296	19	2.1	19	95	0	69	20	38	15	25	1.92
13714238--13714423	64	2.9	65	78	7	184	30	25	16	28	1.96
13714192--13714403	64	3.2	63	79	7	176	32	24	15	27	1.95
13714375--13714423	19	2.6	19	84	9	57	24	30	18	26	1.98
13722545--13722596	20	2.6	20	90	6	79	32	17	28	21	1.96
13722619--13722716	21	4.7	20	78	10	90	24	19	33	22	1.97
13723095--13723191	21	4.6	21	89	0	140	21	37	17	23	1.94
13723095--13723232	42	3.3	41	83	4	159	23	34	18	23	1.96
13723271--13723314	21	2.1	21	83	8	54	22	25	27	25	2.00
13723419--13723458	20	1.9	22	90	10	66	37	40	10	12	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13728578--13728622	23	2.0	23	95	0	81	37	2	37	22	1.67
13738891--13738950	29	2.0	31	90	6	97	35	6	16	41	1.75
13739014--13739061	19	2.5	19	89	0	69	41	12	16	29	1.85
13739166--13739207	21	2.0	21	95	0	75	23	21	28	26	1.99
13739236--13739275	20	1.9	21	85	10	55	37	37	10	15	1.80
13741274--13741306	14	2.3	15	85	15	52	48	12	0	39	1.40
13741385--13741414	14	2.1	15	93	6	53	63	20	0	16	1.31
13744623--13744675	25	2.1	25	86	6	72	43	0	0	56	0.99
13748132--13748247	8	14.5	8	97	0	205	40	25	9	25	1.85
13748477--13748559	22	3.8	22	93	0	112	24	22	16	36	1.95
13755094--13755155	23	2.9	21	85	7	81	20	35	25	17	1.95
13760318--13760353	18	1.9	19	88	5	56	36	2	2	58	1.27
13761634--13761683	25	2.0	25	92	0	82	42	22	14	22	1.88
13761638--13761691	25	2.2	25	86	0	72	46	24	9	20	1.79
13775654--13775691	19	2.0	19	94	0	67	39	5	15	39	1.70
13775826--13775856	12	2.6	12	100	0	62	16	32	0	51	1.44
13776834--13776937	31	3.2	31	67	17	84	38	25	17	19	1.93
13780703--13780801	36	3.0	31	69	13	81	40	18	17	24	1.91
13799916--13799947	2	16.0	2	100	0	64	50	0	0	50	1.00
13802900--13802941	20	2.2	20	91	4	68	35	4	0	59	1.19
13803240--13803322	33	2.5	33	98	0	157	46	0	0	53	1.00
13804992--13805018	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13805984--13806022	20	2.0	20	85	5	53	25	10	20	43	1.83
13808438--13808493	15	3.7	15	78	0	58	35	46	1	16	1.57
13811421--13811828	199	2.0	202	91	2	680	24	21	6	47	1.73
13811865--13811900	12	3.0	12	83	0	54	22	0	0	77	0.76
13811883--13811933	17	3.0	17	80	8	68	23	3	1	70	1.14
13815806--13815873	17	3.9	17	75	12	59	35	13	7	44	1.71
13820120--13820149	15	2.0	15	100	0	60	40	26	13	20	1.89
13833740--13833798	2	29.5	2	100	0	118	50	0	0	49	1.00
13834651--13834960	135	2.3	134	80	1	332	30	18	17	33	1.94
13835572--13835857	89	3.2	89	75	6	276	42	19	14	23	1.88
13835547--13835851	45	6.9	45	79	6	228	40	20	14	24	1.90
13835820--13836202	38	10.0	38	82	6	452	39	18	17	24	1.92
13838204--13838242	18	2.2	18	90	0	60	7	20	0	71	1.10
13844647--13844696	16	3.2	16	78	18	61	0	4	16	80	0.87
13844653--13844701	14	3.4	14	72	10	53	0	4	12	83	0.77
13849359--13849407	16	3.2	16	77	19	59	0	4	16	79	0.88
13849364--13849414	14	3.5	14	74	10	57	0	3	11	84	0.75
13850171--13850204	16	2.1	17	89	10	54	70	5	0	23	1.09
13855749--13855792	3	14.7	3	100	0	88	65	0	0	34	0.93
13855949--13856654	134	5.3	133	83	4	773	31	19	19	29	1.96
13857222--13857438	45	4.7	47	79	11	132	38	20	16	24	1.92
13857292--13857577	89	3.2	90	78	7	307	42	18	15	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13857315--13857598	87	3.2	87	80	4	279	40	17	14	26	1.88
13857262--13857598	45	7.6	45	77	8	266	40	19	14	26	1.89
13857579--13857839	38	6.9	37	75	11	145	40	16	17	24	1.90
13857542--13857915	76	4.9	76	80	9	327	40	16	16	25	1.89
13857625--13857918	38	7.7	38	79	5	281	41	17	16	24	1.89
13857624--13857917	114	2.6	113	80	1	336	41	17	16	24	1.89
13859890--13859945	23	2.4	23	90	3	85	3	16	0	80	0.85
13859892--13859937	15	3.1	14	90	6	65	2	17	0	80	0.81
13859939--13860015	28	2.6	29	76	11	77	7	22	1	68	1.22
13862104--13862128	13	1.9	13	100	0	50	12	32	8	48	1.69
13865279--13865540	45	5.8	45	85	2	312	41	14	20	23	1.89
13865272--13865539	90	3.0	90	87	0	365	41	15	19	23	1.89
13865272--13865525	135	1.9	135	87	0	373	41	15	19	23	1.90
13865456--13865526	24	3.1	24	64	25	62	45	9	18	26	1.81
13884173--13884215	18	2.4	18	84	0	50	67	0	6	25	1.15
13885015--13885091	41	1.9	40	86	2	109	63	6	1	28	1.27
13905111--13905174	2	32.0	2	100	0	128	50	0	0	50	1.00
13916823--13916875	25	2.0	27	85	14	74	60	3	13	22	1.49
13916904--13916946	22	2.0	22	90	0	68	27	16	11	44	1.82
13921998--13922099	29	3.5	29	95	0	186	16	11	22	49	1.78
13925669--13925717	20	2.5	20	89	0	80	40	12	18	28	1.86
13925734--13925795	20	3.1	20	95	0	106	25	27	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13925973--13926037	22	3.0	22	86	0	94	21	41	15	21	1.90
13926376--13926464	20	4.8	20	71	17	66	20	20	23	35	1.95
13926432--13926488	21	2.8	21	89	2	80	12	15	21	50	1.76
13928254--13928315	31	2.0	31	87	9	90	22	8	17	51	1.71
13928488--13928655	74	2.3	73	87	7	257	35	22	19	22	1.96
13928452--13928615	20	8.5	20	82	12	182	34	23	18	23	1.96
13928697--13928746	20	2.5	20	96	0	91	26	20	24	30	1.98
13929256--13929360	21	5.0	21	75	4	104	20	35	19	25	1.95
13929252--13929360	42	2.6	44	74	11	120	19	35	19	25	1.95
13930738--13930796	30	2.0	30	100	0	118	30	3	15	50	1.60
13930742--13930791	15	3.3	15	69	20	50	34	2	16	48	1.57
13930950--13931227	20	14.9	20	75	13	234	23	21	21	34	1.97
13930970--13931071	53	1.9	54	91	2	170	20	19	24	35	1.96
13930942--13931126	73	2.5	74	93	0	309	21	20	22	35	1.96
13931043--13931199	54	2.9	54	91	1	253	22	21	20	35	1.96
13930950--13931224	74	3.7	73	82	6	304	22	21	21	34	1.97
13931402--13931436	18	1.9	18	94	0	61	17	2	25	54	1.57
13933474--13933510	14	2.6	14	91	4	56	5	21	21	51	1.68
13934243--13934314	29	2.4	30	93	2	119	33	23	18	25	1.97
13934300--13934381	31	2.6	31	76	0	83	34	23	14	28	1.94
13936393--13936439	24	2.0	24	95	0	85	36	21	21	21	1.96
13937273--13937347	21	3.7	20	75	10	71	18	21	28	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13937265--13937343	41	1.9	41	92	0	131	20	20	27	31	1.97
13937336--13937388	20	2.7	20	90	0	88	20	18	18	41	1.91
13937474--13937510	19	1.9	19	94	0	65	27	13	27	32	1.94
13938361--13938390	15	1.9	16	93	6	53	80	10	10	0	0.92
13938386--13938511	54	2.4	49	76	17	137	76	3	17	2	1.02
13938425--13938505	37	2.2	37	89	6	121	77	3	17	1	0.97
13939990--13940350	131	2.7	134	79	5	374	26	31	18	24	1.97
13940524--13940558	10	3.6	10	88	7	54	37	0	0	62	0.95
13942233--13942257	2	12.5	2	100	0	50	48	0	0	52	1.00
13949192--13949237	20	2.3	19	85	14	58	26	15	8	50	1.73

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