genome.fa.s8747.2.7.7.80.10.50.1000.43.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   

This is table  43  of  51  ( 6054 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)
10790884--10790928	18	2.5	18	88	0	72	62	15	6	15	1.52
10797607--10797800	89	2.2	89	97	0	361	29	6	13	50	1.68
10804557--10804862	90	3.4	91	72	12	317	38	18	11	31	1.86
10811145--10811194	19	2.6	19	77	0	55	18	30	20	32	1.96
10814079--10814163	37	2.4	35	92	7	138	37	20	7	35	1.80
10825145--10825178	2	17.0	2	100	0	68	50	0	0	50	1.00
10826603--10826643	20	2.0	21	85	4	57	34	9	4	51	1.56
10831538--10831688	57	2.6	58	82	8	184	35	12	17	35	1.87
10835681--10835722	18	2.3	18	88	12	59	71	0	0	28	0.86
10845823--10845867	22	2.0	22	95	0	81	33	26	11	28	1.91
10851231--10851263	17	2.1	16	88	11	50	60	9	0	30	1.27
10851371--10851400	15	2.0	15	93	0	51	66	0	3	30	1.07
10853710--10853740	3	10.3	3	100	0	62	32	0	0	67	0.91
10859575--10859656	32	2.5	33	82	13	89	73	7	13	6	1.24
10859619--10859670	23	2.3	23	80	6	61	75	1	17	5	1.10
10863643--10863692	23	2.2	23	100	0	100	26	32	16	26	1.96
10865432--10865463	15	2.0	17	88	11	50	43	12	18	25	1.85
10874272--10874585	104	3.0	106	91	4	493	22	18	26	32	1.97
10874543--10874628	43	2.0	43	100	0	172	16	25	25	32	1.96
10874546--10874652	43	2.5	43	89	3	153	19	22	23	34	1.96
10874442--10874726	147	1.9	147	93	1	491	20	19	26	33	1.96
10875361--10875490	66	1.9	69	84	4	176	37	8	20	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10875361--10875511	66	2.3	65	82	7	173	36	9	21	32	1.86
10875494--10875550	15	3.5	15	71	17	51	38	15	22	22	1.92
10875487--10875735	36	7.3	35	72	16	161	39	14	18	27	1.89
10875523--10875714	100	1.9	97	84	7	253	40	15	17	27	1.89
10875626--10875741	33	3.3	35	83	10	150	41	13	18	25	1.88
10875479--10875782	132	2.3	133	84	5	375	39	13	18	28	1.89
10875726--10875778	28	1.9	27	81	11	63	32	11	16	39	1.85
10876228--10876261	17	2.0	17	94	0	59	44	29	5	20	1.75
10876509--10876552	22	2.0	22	91	8	72	27	11	22	38	1.88
10877150--10877200	9	5.2	10	83	6	61	0	9	5	84	0.78
10877144--10877181	9	4.6	8	87	12	51	0	10	5	84	0.77
10878279--10878315	7	5.1	7	90	3	56	56	13	18	10	1.66
10881271--10881304	9	3.8	9	88	11	52	76	0	2	20	0.92
10881356--10881380	2	12.5	2	100	0	50	52	0	0	48	1.00
10895766--10895799	17	2.0	17	88	0	50	64	5	0	29	1.17
10897005--10897029	2	12.5	2	100	0	50	52	0	0	48	1.00
10897078--10897133	26	2.1	28	86	6	80	48	1	0	50	1.11
10902218--10902277	22	2.7	23	77	20	72	63	6	0	30	1.20
10903599--10903623	12	2.1	12	100	0	50	40	0	8	52	1.31
10916004--10916046	22	2.0	21	81	4	50	58	6	2	32	1.38
10917473--10917690	120	1.8	120	88	0	337	32	21	17	28	1.96
10921019--10921065	21	2.2	21	77	7	51	19	14	12	53	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10921547--10921770	96	2.3	96	83	3	274	36	15	20	27	1.93
10922112--10922709	57	10.5	57	90	2	862	36	11	19	33	1.87
10923361--10923475	45	2.6	45	84	0	149	48	5	21	24	1.70
10923970--10924014	22	2.0	22	100	0	90	53	8	0	37	1.32
10926815--10926885	22	3.5	20	77	9	72	35	15	22	26	1.94
10926662--10926885	96	2.3	97	84	3	294	35	15	22	26	1.94
10927227--10927711	57	8.5	57	95	0	846	36	12	19	31	1.89
10927221--10927711	227	2.2	228	94	1	869	36	12	19	31	1.89
10928305--10928409	45	2.3	45	83	0	120	45	7	23	22	1.78
10932203--10932323	52	2.3	52	90	2	190	25	29	13	31	1.93
10938621--10938653	16	2.1	16	100	0	66	57	24	12	6	1.57
10938719--10938809	10	9.7	10	67	25	65	57	21	12	8	1.62
10938723--10938803	16	5.1	16	96	0	153	56	23	12	7	1.60
10939556--10939611	14	4.3	13	78	21	64	51	23	14	10	1.73
10939536--10939610	24	3.1	24	88	7	100	54	20	12	13	1.70
10939549--10939636	24	3.7	24	83	8	101	51	21	14	12	1.75
10950682--10950867	101	1.8	101	84	2	257	29	25	17	27	1.97
10953336--10953372	18	2.1	18	94	0	65	40	8	21	29	1.82
10953502--10953568	28	2.4	28	92	0	116	38	1	14	44	1.55
10955915--10955968	22	2.5	22	84	0	72	22	20	20	37	1.95
10955931--10955982	22	2.4	22	90	6	79	17	17	21	44	1.87
10960413--10960470	22	2.7	21	84	7	71	22	17	22	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10964419--10964543	60	2.1	60	81	0	142	34	19	13	32	1.91
10966163--10966197	18	1.9	18	100	0	70	22	11	25	40	1.88
10969152--10969186	3	12.0	3	87	6	54	34	2	0	62	1.10
10969151--10969187	17	2.2	17	95	0	65	37	2	0	59	1.12
10969453--10969822	144	2.6	143	84	4	467	34	19	23	22	1.96
10974855--10974954	43	2.3	43	84	0	128	29	28	18	25	1.98
10975408--10975529	43	2.8	43	86	2	165	30	29	17	22	1.97
10975614--10975715	42	2.4	43	80	8	118	30	31	16	21	1.96
10975397--10975928	200	2.6	205	82	4	639	31	27	18	22	1.97
10975815--10975924	43	2.6	43	86	2	150	28	31	18	21	1.97
10976399--10976520	43	2.8	43	86	0	172	28	30	18	22	1.97
10976824--10976984	37	4.4	36	76	6	144	24	19	17	38	1.93
10976824--10976984	73	2.2	72	74	3	160	24	19	17	38	1.93
10976925--10977088	67	2.5	66	80	9	181	29	18	14	37	1.90
10977104--10977263	69	2.3	67	82	6	196	31	18	10	39	1.84
10977104--10977263	33	4.7	35	69	10	107	31	18	10	39	1.84
10977333--10977818	131	3.7	132	85	2	608	24	30	18	26	1.98
10977354--10977774	40	9.7	45	70	15	201	24	30	18	26	1.98
10977982--10978030	3	16.3	3	95	0	89	34	2	0	63	1.06
10978307--10978669	145	2.5	145	82	2	424	34	20	24	21	1.97
10979643--10980099	227	2.0	229	99	0	900	34	17	17	29	1.94
10987273--10987302	15	2.1	15	93	6	53	26	0	0	73	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10987343--10987377	3	11.7	3	88	11	54	37	0	0	62	0.95
10987341--10987377	13	2.7	14	91	8	67	37	0	0	62	0.96
10991918--10992178	93	2.7	96	89	5	379	33	16	17	32	1.92
10993236--10993713	239	2.0	245	88	4	720	31	23	18	25	1.98
10993594--10993825	124	1.9	124	89	0	365	31	25	16	26	1.97
10993837--10994975	84	13.6	84	83	1	1287	34	23	18	24	1.96
10993837--10994975	168	6.8	168	87	1	1512	34	23	18	24	1.96
10993837--10994965	503	2.2	503	87	1	1555	33	23	18	24	1.96
10995553--10995578	13	2.0	13	100	0	52	38	0	0	61	0.96
10996577--10996733	28	5.4	29	82	7	178	38	18	6	36	1.76
10996551--10996733	29	6.3	30	80	6	182	39	18	6	36	1.75
10996553--10996718	87	1.9	87	82	3	208	39	16	6	37	1.75
10997783--10997836	20	2.7	20	94	0	90	37	3	29	29	1.75
11004084--11004185	21	5.0	21	84	5	131	36	22	9	31	1.87
11004084--11004185	40	2.5	41	82	6	127	36	22	9	31	1.87
11005126--11005179	24	2.2	24	90	0	81	22	16	20	40	1.91
11009593--11009656	29	2.2	30	80	5	76	34	23	4	37	1.76
11012280--11012335	21	2.8	21	79	15	64	7	19	0	73	1.06
11012247--11012361	50	2.3	48	81	11	126	6	20	0	73	1.10
11012262--11012356	33	2.8	32	81	13	111	5	20	1	73	1.08
11013453--11013477	6	4.2	6	100	0	50	32	36	16	16	1.90
11014656--11014703	7	6.3	7	80	17	51	39	8	27	25	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11016853--11016916	29	2.2	30	80	5	76	34	23	4	37	1.76
11017978--11018020	13	3.2	13	77	6	50	48	6	0	44	1.29
11018321--11018798	182	2.6	181	82	4	559	42	13	16	27	1.86
11021318--11021356	18	2.2	18	95	0	69	58	0	35	5	1.20
11021658--11021690	17	1.9	17	100	0	66	51	6	12	30	1.63
11022842--11022891	19	2.6	20	87	9	77	32	0	10	58	1.31
11023224--11023992	198	3.9	197	92	2	1256	36	16	15	31	1.90
11023226--11024122	396	2.3	395	87	3	1270	37	15	15	31	1.89
11024463--11024500	15	2.5	15	91	0	67	15	44	5	34	1.69
11025631--11025671	3	13.7	3	84	0	55	39	2	31	26	1.70

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