genome.fa.s9592.2.7.7.80.10.50.1000.27.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   

This is table  27  of  39  ( 4673 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)
5273822--5273922	36	2.8	35	91	4	157	11	38	30	18	1.87
5273892--5274031	60	2.3	61	81	3	158	21	32	24	22	1.98
5274991--5275184	97	2.0	97	92	2	327	36	20	18	25	1.95
5288673--5288726	15	3.5	15	76	11	56	42	3	1	51	1.30
5292323--5295074	549	5.0	549	92	1	4182	38	14	25	21	1.91
5293388--5293420	17	2.0	17	88	5	50	45	9	33	12	1.73
5293936--5293969	16	2.1	17	88	5	52	44	8	35	11	1.72
5294485--5294518	16	2.1	17	88	5	52	44	8	35	11	1.72
5298742--5298790	23	2.1	23	85	7	64	40	8	20	30	1.81
5298862--5299588	200	3.6	197	84	8	877	30	15	14	39	1.87
5303547--5304716	201	5.8	199	83	3	1420	32	16	13	37	1.88
5303550--5304716	401	2.9	400	85	4	1554	32	16	13	37	1.88
5306217--5306263	3	15.7	3	81	0	58	31	27	0	40	1.57
5307742--5308902	200	5.8	199	83	3	1359	31	16	14	37	1.89
5307781--5308902	402	2.8	397	84	4	1443	31	16	14	37	1.89
5307781--5308902	602	1.9	600	89	1	1757	31	16	14	37	1.89
5309253--5309301	19	2.6	19	96	0	89	55	10	2	32	1.45
5310982--5311031	18	2.8	18	75	0	55	34	28	20	18	1.95
5311798--5311855	20	2.6	22	89	10	84	25	22	20	31	1.98
5311862--5311965	45	2.3	45	83	4	131	30	19	15	34	1.93
5315023--5315074	18	2.9	18	76	0	68	30	28	21	19	1.97
5315836--5315893	20	2.7	20	84	10	71	27	22	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5315881--5316021	64	2.2	63	85	7	187	26	24	17	31	1.97
5317500--5317556	18	3.2	18	92	0	87	3	38	0	57	1.16
5317806--5317845	21	1.9	21	94	0	71	15	32	12	40	1.84
5318236--5318291	24	2.5	22	83	13	78	55	1	0	42	1.10
5320258--5321112	182	4.7	182	87	2	1166	28	16	14	41	1.87
5324071--5324140	34	2.1	34	100	0	140	42	18	11	27	1.84
5326002--5326047	24	1.9	24	86	0	65	26	6	8	58	1.52
5326731--5326887	65	2.4	65	81	2	181	29	17	24	28	1.98
5327600--5327630	10	3.1	10	90	0	53	48	22	0	29	1.51
5340008--5340770	162	4.7	161	88	3	1003	38	10	30	19	1.86
5342204--5342259	28	2.0	28	92	0	94	30	28	12	28	1.93
5342659--5342715	27	2.1	27	87	3	80	40	14	15	29	1.87
5344740--5344773	18	1.9	17	88	5	50	26	0	11	61	1.30
5346096--5346141	14	3.6	14	75	22	55	6	10	26	56	1.58
5346096--5346161	24	2.8	24	92	0	105	9	10	22	57	1.60
5346100--5346151	10	4.8	10	80	17	59	7	11	25	55	1.61
5346111--5346161	14	3.9	14	73	19	56	9	11	21	56	1.63
5347063--5347107	22	2.0	22	95	0	81	6	13	24	55	1.62
5347069--5347111	10	4.1	10	77	11	50	9	11	20	58	1.61
5348895--5348994	24	4.2	24	69	5	76	46	16	14	24	1.83
5351482--5351521	7	5.4	7	88	11	62	25	27	35	12	1.92
5351483--5351521	15	2.6	15	100	0	78	25	25	35	12	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5351483--5351524	8	5.5	8	91	8	70	23	26	35	14	1.93
5351505--5351595	18	5.2	18	78	16	93	15	17	48	18	1.82
5351511--5351591	31	2.6	31	86	0	126	14	18	48	18	1.82
5351537--5351572	13	2.8	13	91	0	63	16	13	50	19	1.79
5351511--5351542	13	2.5	13	94	0	55	12	21	46	18	1.82
5353727--5353826	24	4.2	24	69	5	76	46	16	14	24	1.83
5356315--5356354	7	5.4	7	88	11	62	25	27	35	12	1.92
5356316--5356354	15	2.6	15	100	0	78	25	25	35	12	1.92
5356316--5356357	8	5.5	8	91	8	70	23	26	35	14	1.93
5356369--5356404	13	2.8	13	91	0	63	16	13	50	19	1.79
5356352--5356427	18	4.6	18	78	17	83	13	17	50	19	1.78
5359792--5359832	21	2.0	21	85	0	55	39	17	4	39	1.71
5360803--5360870	30	2.3	30	97	2	129	25	8	2	63	1.38
5372638--5372681	21	2.0	22	86	4	63	50	9	9	31	1.65
5373365--5373471	21	5.5	21	64	28	65	23	25	27	24	2.00
5373346--5373479	38	3.5	38	89	4	207	23	26	24	24	2.00
5373628--5373732	46	2.3	46	96	1	194	33	18	5	42	1.73
5373652--5373724	22	3.2	22	67	14	67	34	19	5	41	1.74
5374159--5374188	15	2.0	15	100	0	60	13	26	33	26	1.93
5377503--5377537	2	17.5	2	100	0	70	48	0	0	51	1.00
5377714--5377751	19	2.0	19	100	0	76	47	26	0	26	1.52
5379550--5379656	21	5.5	21	64	24	63	23	25	26	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5379531--5379664	38	3.5	38	90	0	205	23	26	23	26	2.00
5379816--5379917	46	2.2	46	96	0	186	33	17	4	44	1.70
5379826--5379899	23	3.2	23	70	14	80	33	18	6	40	1.77
5379837--5379909	22	3.2	22	63	14	58	34	17	5	42	1.73
5380324--5380394	34	2.0	35	91	8	117	19	32	30	16	1.95
5383702--5383766	2	32.5	2	100	0	130	49	0	0	50	1.00
5383941--5383978	19	2.0	19	100	0	76	47	26	0	26	1.52
5385779--5385885	21	5.5	21	64	24	63	23	25	26	25	2.00
5385760--5385893	38	3.5	38	90	0	205	23	26	23	26	2.00
5386045--5386146	46	2.2	46	96	0	186	33	17	4	44	1.70
5386055--5386128	23	3.2	23	70	14	80	33	18	6	40	1.77
5386066--5386138	22	3.2	22	63	14	58	34	17	5	42	1.73
5386553--5386622	34	2.0	35	94	5	124	20	31	31	17	1.95
5388582--5388625	21	2.1	21	91	4	72	47	9	4	38	1.56
5390026--5390053	2	14.0	2	100	0	56	50	0	0	50	1.00
5402865--5402932	31	2.2	31	94	0	118	17	26	20	35	1.95
5407784--5407820	20	1.9	19	89	10	58	45	5	24	24	1.74
5408749--5408784	2	18.0	2	100	0	72	50	0	0	50	1.00
5409341--5409459	21	5.8	21	70	6	73	34	26	17	21	1.95
5409447--5409619	20	8.6	20	85	5	233	33	28	19	18	1.95
5409999--5410069	33	2.2	33	94	0	124	11	23	16	47	1.79
5410149--5410225	21	3.7	21	78	13	95	49	16	20	12	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5410210--5410266	14	3.7	14	75	20	60	43	22	24	8	1.81
5410203--5410282	33	2.4	33	95	0	142	47	22	21	8	1.78
5410278--5410405	19	7.1	19	70	19	78	10	24	18	46	1.81
5410300--5410356	14	3.7	14	75	20	60	8	22	22	45	1.80
5410283--5410405	33	3.5	33	85	10	156	10	23	18	47	1.80
5410341--5410405	21	3.1	21	82	4	96	10	26	15	47	1.78
5412223--5412346	33	3.7	33	87	1	167	46	26	16	9	1.78
5412272--5412330	14	3.9	14	76	20	64	49	28	15	6	1.70
5412255--5412346	19	5.4	18	72	24	74	47	28	16	7	1.73
5412342--5412514	19	9.6	19	75	12	150	10	19	23	46	1.81
5412342--5412514	33	4.8	38	80	8	159	10	19	23	46	1.81
5414436--5414471	14	2.6	14	95	0	63	33	0	22	44	1.53
5414578--5414676	19	5.4	19	83	14	136	45	17	23	14	1.84
5414578--5414695	53	2.2	53	96	3	220	44	17	24	13	1.85
5414685--5414966	19	15.7	19	78	16	316	15	21	17	45	1.85
5414691--5414938	53	4.6	53	93	3	408	14	22	16	45	1.84
5414868--5414999	53	2.5	51	72	9	122	15	18	20	46	1.84
5417461--5417507	24	2.0	24	87	8	69	38	21	14	25	1.92
5418199--5418427	20	11.4	20	85	1	235	19	17	25	36	1.94
5419412--5419468	29	2.0	28	93	3	96	21	10	8	59	1.57
5420582--5420616	11	3.2	11	91	0	61	42	25	8	22	1.82
5425533--5425594	27	2.2	28	88	2	90	45	22	11	20	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5427172--5427245	13	5.7	13	85	0	85	28	14	18	37	1.91
5427224--5427387	85	1.9	84	88	3	249	29	20	19	30	1.97
5433888--5433913	5	5.2	5	100	0	52	80	0	0	19	0.71
5434681--5434740	27	2.2	27	90	0	93	26	16	20	36	1.93
5434682--5434785	32	3.4	32	77	11	101	27	18	17	36	1.93
5436771--5436824	26	2.1	26	92	0	90	53	11	3	31	1.53
5438685--5438732	25	2.0	23	84	8	60	6	14	39	39	1.71
5441128--5441165	16	2.3	16	95	4	67	26	7	28	36	1.84
5450893--5450931	13	3.0	13	92	7	62	71	0	23	5	1.05
5450923--5450988	9	7.8	8	78	13	62	81	0	6	12	0.85

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