genome.fa.s8087.2.7.7.80.10.50.1000.25.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  25  of  37  ( 4336 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)
5751465--5751632	83	2.0	83	91	0	273	29	12	11	45	1.78
5752037--5752084	18	2.8	18	84	6	64	39	6	25	29	1.80
5752644--5752713	31	2.3	30	87	2	95	47	25	7	20	1.75
5752654--5752725	31	2.3	31	80	7	83	44	27	9	18	1.81
5755381--5755464	34	2.5	33	81	12	91	61	15	1	21	1.40
5755415--5755464	24	2.1	23	85	3	64	64	12	0	24	1.27
5757668--5757780	46	2.4	47	86	2	156	26	10	4	58	1.50
5760217--5760274	2	29.5	2	92	3	100	48	1	0	50	1.11
5762197--5762238	12	3.2	13	86	10	50	23	0	0	76	0.79
5763694--5763789	45	2.1	46	96	1	176	28	9	20	41	1.83
5773496--5773538	19	2.2	20	88	12	63	69	2	18	9	1.26
5773509--5773591	41	2.0	41	81	4	96	74	1	18	6	1.08
5773526--5773607	27	3.3	25	78	17	73	75	1	18	4	1.04
5773582--5773619	20	1.9	20	84	10	51	78	0	15	5	0.91
5774934--5775255	51	6.2	51	89	5	437	28	15	27	27	1.96
5774929--5775255	106	3.1	105	90	1	489	28	15	27	28	1.96
5774929--5775303	51	7.1	54	88	4	416	28	16	26	28	1.97
5774929--5775367	55	8.3	55	86	5	349	29	16	26	28	1.97
5774995--5775365	106	3.5	106	84	3	298	29	16	26	27	1.97
5787001--5787071	2	35.5	2	94	5	126	49	1	0	49	1.09
5789120--5789223	32	3.2	32	79	5	120	46	0	3	49	1.26
5789118--5789212	10	9.0	10	70	11	55	49	1	3	46	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5796730--5796851	60	2.0	60	84	6	158	37	18	16	27	1.92
5797049--5797092	20	2.2	20	91	0	70	61	20	18	0	1.35
5797772--5797812	22	1.9	21	90	5	64	21	0	7	70	1.11
5805424--5805464	3	13.7	3	100	0	82	34	0	0	65	0.93
5805580--5805635	2	28.0	2	100	0	112	50	0	0	50	1.00
5805803--5805900	13	7.2	13	70	18	58	66	1	10	22	1.28
5813714--5813746	17	1.9	17	93	0	57	27	39	18	15	1.90
5813698--5813876	64	2.8	62	81	10	193	29	24	19	26	1.98
5818750--5818816	30	2.2	30	86	0	89	34	28	17	19	1.95
5823629--5823672	21	2.1	21	86	0	61	6	43	15	34	1.74
5824363--5824400	19	2.0	19	100	0	76	42	0	21	36	1.53
5824815--5824974	64	2.5	64	83	9	195	30	23	19	26	1.98
5824946--5824994	19	2.6	19	84	9	57	24	28	20	26	1.99
5824815--5824994	64	2.8	62	77	14	170	29	23	19	27	1.98
5828952--5828988	18	2.1	18	94	0	65	27	29	8	35	1.85
5831583--5831661	33	2.4	33	100	0	158	39	11	12	36	1.79
5832157--5832197	18	2.3	18	100	0	82	24	12	41	21	1.87
5841676--5841808	68	2.0	68	100	0	266	29	19	28	22	1.98
5852654--5852712	15	4.1	15	72	14	52	42	0	0	57	0.98
5853262--5853318	24	2.3	25	78	6	71	47	1	0	50	1.11
5853262--5853307	18	2.5	19	75	10	51	50	2	0	47	1.13
5859534--5859611	40	2.0	40	92	0	129	14	32	17	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5860521--5860678	21	7.8	20	72	7	86	38	25	17	18	1.92
5860645--5860914	20	13.5	20	81	6	269	37	25	17	20	1.94
5861597--5861643	24	2.0	24	87	8	69	25	14	21	38	1.92
5864073--5864360	33	8.2	34	86	9	325	46	17	21	14	1.84
5864087--5864366	19	15.7	19	80	15	348	45	17	21	15	1.85
5864073--5864328	52	4.8	52	84	13	342	46	17	21	14	1.83
5864073--5864366	110	2.8	106	92	5	495	45	17	22	14	1.85
5864288--5864342	14	3.6	14	73	21	56	45	20	23	10	1.82
5864356--5864472	53	2.2	52	95	1	207	13	23	17	44	1.85
5864375--5864472	19	5.4	19	83	13	134	14	21	17	46	1.83
5864579--5864615	14	2.6	14	91	0	65	45	21	0	32	1.52
5866538--5866691	19	8.6	19	80	14	166	46	23	19	11	1.82
5866594--5866650	14	3.7	14	77	20	60	45	22	21	10	1.82
5866575--5866669	33	2.9	33	95	0	172	46	22	21	10	1.81
5866555--5866691	52	2.6	51	80	14	147	46	22	20	10	1.80
5866703--5866759	14	3.7	14	75	20	60	8	24	22	43	1.81
5866687--5866767	33	2.5	33	95	0	144	8	22	22	46	1.78
5866744--5866819	21	3.7	21	83	3	109	11	25	17	46	1.82
5866743--5866820	41	1.9	41	97	0	147	12	25	16	44	1.83
5866899--5866969	33	2.2	33	92	0	115	47	18	22	11	1.80
5867151--5867205	22	2.5	22	81	0	74	20	16	40	23	1.91
5867352--5867505	20	7.7	20	81	7	168	18	18	26	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5867351--5867505	40	3.8	40	82	4	186	18	18	26	37	1.93
5867492--5867570	21	3.8	21	75	0	77	24	17	22	35	1.95
5867472--5867570	42	2.4	43	78	8	107	22	18	22	37	1.94
5873795--5873842	22	2.1	23	96	3	89	29	0	25	45	1.53
5873802--5873844	11	3.9	11	82	11	61	30	0	27	41	1.56
5885517--5885726	53	3.9	53	88	1	296	20	28	22	28	1.99
5886136--5886349	80	2.7	80	94	0	365	30	21	17	30	1.96
5886308--5886390	42	2.0	42	95	0	148	31	25	19	24	1.98
5886316--5886384	22	3.2	21	71	17	70	31	24	17	26	1.97
5907713--5907832	60	2.0	60	98	0	231	29	17	23	30	1.97
5909266--5909307	17	2.4	18	76	4	50	50	2	4	42	1.36
5911118--5911765	113	5.7	113	80	10	681	29	19	13	37	1.90
5910999--5911780	234	3.4	232	83	9	938	29	19	13	37	1.90
5913278--5913367	10	8.9	10	78	16	55	0	20	0	80	0.72
5913281--5913377	8	13.3	7	76	15	74	1	18	0	80	0.77
5913281--5913378	21	4.8	20	77	17	105	1	19	0	79	0.79
5920701--5920732	15	2.1	15	94	0	55	46	9	18	25	1.79
5924817--5924858	17	2.4	18	76	4	50	50	2	4	42	1.36
5924892--5924932	23	1.9	20	85	14	55	65	2	2	29	1.18
5926294--5926348	3	18.7	3	85	10	51	60	0	0	40	0.97
5926281--5926352	30	2.4	29	83	4	90	55	0	0	44	0.99
5935863--5935898	19	1.9	18	88	5	54	58	5	22	13	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5940216--5940387	59	2.9	59	75	5	168	24	19	7	48	1.74
5940433--5940471	19	2.0	19	85	5	51	48	2	5	43	1.38
5943428--5943452	13	1.9	13	100	0	50	12	8	8	72	1.29
5952518--5952567	24	2.1	24	84	0	64	42	14	6	38	1.70
5953829--5953899	37	1.9	37	85	0	97	40	11	11	36	1.77
5954298--5954336	19	2.1	19	85	4	53	12	2	10	74	1.17
5954627--5954651	9	2.8	9	100	0	50	32	0	8	60	1.26
5954714--5954769	19	3.0	20	75	17	57	16	5	3	75	1.13
5960311--5960366	20	2.8	20	86	8	69	32	23	19	25	1.98
5960371--5960456	19	4.2	19	71	16	64	38	5	25	30	1.79
5960421--5960457	19	1.9	19	100	0	74	40	5	27	27	1.78
5962272--5962329	29	2.0	30	93	3	100	60	3	1	34	1.24
5963755--5963784	15	1.9	16	93	6	53	83	0	0	16	0.65
5963754--5963805	4	12.8	4	77	18	54	75	1	1	21	1.00
5964197--5964238	11	3.7	11	79	14	50	2	35	0	61	1.09
5966944--5967010	27	2.5	27	92	0	116	22	7	8	61	1.51
5968699--5968724	9	2.9	9	100	0	52	19	11	0	69	1.18
5970783--5970816	15	2.3	15	89	0	50	52	2	0	44	1.16
5975529--5975566	2	19.0	2	100	0	76	50	0	0	50	1.00
5978342--5978387	23	2.0	23	82	0	56	34	23	21	19	1.96
5983532--5983595	23	2.8	23	75	0	74	35	23	21	18	1.95
5986281--5986317	17	2.2	17	95	0	65	13	24	48	13	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5993595--5993684	32	2.9	31	85	8	121	26	17	21	34	1.95
5996005--5996051	24	2.0	24	87	8	69	38	0	2	59	1.09
5999580--5999680	2	51.5	2	76	14	77	39	1	0	57	1.17
5999598--5999687	32	2.7	33	84	3	119	35	2	1	61	1.16
5999622--5999702	38	2.2	37	84	6	101	29	2	0	67	1.03
5999692--5999757	9	7.3	9	76	11	55	12	4	1	81	0.90
5999676--5999753	21	3.6	21	78	14	79	14	5	1	79	0.96
5999680--5999762	35	2.4	35	80	11	91	13	6	1	79	0.97
5999693--5999757	31	2.1	31	85	5	87	12	4	1	81	0.91
5999798--5999853	26	2.2	26	87	12	80	23	7	0	69	1.12

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