genome.fa.s9639.2.7.7.80.10.50.1000.24.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  24  of  62  ( 7398 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)
5185019--5185115	33	2.9	32	79	18	108	41	1	1	56	1.13
5185183--5185224	20	2.1	20	86	8	59	47	0	0	52	1.00
5185184--5185229	24	1.9	24	86	8	67	45	0	2	52	1.13
5186217--5186269	27	2.0	27	92	0	88	49	7	7	35	1.60
5186894--5187022	40	3.3	39	91	3	197	23	27	37	12	1.90
5190568--5190606	13	3.0	13	80	0	51	64	15	5	15	1.46
5198285--5198518	117	2.0	117	100	0	468	28	29	17	25	1.97
5201156--5201195	21	1.9	21	84	0	53	17	40	2	40	1.63
5204540--5204575	12	3.0	12	91	0	54	16	27	11	44	1.82
5206262--5206301	20	2.0	20	85	5	53	20	40	2	37	1.66
5213390--5213443	27	2.0	28	85	10	76	66	3	0	29	1.09
5214424--5214465	8	4.9	8	83	16	57	47	0	0	52	1.00
5214419--5214465	19	2.7	18	87	12	71	46	0	0	53	1.00
5214424--5214477	27	1.9	28	92	7	92	48	1	0	50	1.11
5215222--5215338	49	2.4	49	82	1	146	16	31	28	23	1.96
5215614--5215819	107	1.9	107	93	3	353	36	8	11	44	1.70
5217209--5217251	18	2.4	18	92	0	68	27	30	16	25	1.97
5226618--5226666	20	2.5	19	77	6	53	28	4	0	67	1.09
5226968--5226992	13	1.9	13	100	0	50	36	0	0	64	0.94
5230961--5231329	182	2.0	186	97	2	710	32	9	33	24	1.88
5236356--5236399	14	3.1	14	81	12	54	22	9	25	43	1.82
5238735--5238777	23	1.9	22	85	4	59	30	0	11	58	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5239096--5239129	3	11.3	3	100	0	68	67	32	0	0	0.91
5239522--5239550	15	2.0	15	93	6	51	79	0	13	6	0.93
5243654--5243684	11	2.7	12	90	10	55	38	0	0	61	0.96
5247514--5247623	29	3.6	30	85	8	134	30	24	11	32	1.91
5247777--5247816	21	2.0	20	85	14	55	42	12	10	35	1.76
5250080--5250151	30	2.3	31	73	4	74	31	19	6	41	1.78
5250448--5250486	15	2.8	14	85	11	53	38	0	20	41	1.53
5251309--5251347	20	1.9	21	89	5	62	41	28	12	17	1.87
5251275--5251365	23	4.0	23	76	9	98	39	24	15	20	1.91
5251720--5251752	17	1.9	17	88	11	50	30	15	3	51	1.58
5256844--5256889	17	2.7	17	86	6	58	28	13	0	58	1.35
5279600--5279712	36	3.2	36	86	5	149	44	19	18	17	1.87
5279957--5280021	31	2.1	32	85	2	87	49	24	12	13	1.77
5281071--5281100	2	15.0	2	100	0	60	50	0	0	50	1.00
5286949--5286990	22	1.9	22	85	0	57	21	7	16	54	1.65
5288828--5288875	24	2.0	25	84	12	64	50	6	16	27	1.69
5289477--5289521	16	2.6	18	76	23	51	26	13	4	55	1.57
5293702--5293734	13	2.6	13	95	4	59	63	15	0	21	1.30
5294073--5294146	23	3.3	23	86	1	87	35	22	25	16	1.95
5299114--5299408	46	6.4	46	92	0	464	43	14	20	22	1.87
5300007--5300043	17	2.3	17	90	9	60	81	0	13	5	0.86
5300713--5300770	18	3.1	18	76	18	57	74	0	22	3	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5300712--5300768	21	2.7	22	77	17	59	71	0	24	3	1.01
5300788--5300891	41	2.5	41	78	7	104	44	13	21	21	1.86
5301376--5301494	43	2.7	43	75	6	116	27	15	19	36	1.92
5301336--5301628	133	2.2	132	80	7	317	28	16	18	37	1.92
5302321--5302386	34	1.9	34	84	9	89	39	6	12	42	1.67
5304855--5304903	2	24.5	2	100	0	98	48	0	0	51	1.00
5305067--5305546	81	5.9	81	93	1	802	29	23	11	35	1.90
5305067--5305546	161	3.0	162	94	1	820	29	23	11	35	1.90
5305067--5305543	242	2.0	243	93	2	823	29	22	11	35	1.90
5305491--5305656	68	2.4	68	86	2	226	29	25	13	30	1.94
5307895--5308109	47	4.6	47	93	1	360	37	7	19	35	1.80
5308580--5308616	13	2.8	13	92	8	58	16	32	13	37	1.87
5309057--5309215	56	2.8	57	84	7	184	34	20	10	33	1.87
5309543--5309768	94	2.4	95	82	3	249	26	21	15	36	1.93
5313470--5313508	20	2.0	20	89	0	60	56	0	5	38	1.22
5315705--5315737	17	1.9	17	88	11	50	60	12	6	21	1.53
5317010--5317122	34	3.2	35	78	13	108	43	4	2	49	1.36
5317101--5317184	22	3.9	22	69	20	70	44	5	5	44	1.53
5316994--5317126	2	67.5	2	67	19	66	45	3	2	48	1.32
5317476--5317685	65	3.3	63	80	11	221	30	24	19	25	1.98
5317657--5317705	19	2.6	19	84	9	57	24	28	20	26	1.99
5318419--5318483	29	2.2	29	91	0	112	43	9	4	43	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5318476--5318520	13	3.5	13	96	0	81	48	8	4	37	1.55
5318469--5318532	22	2.8	23	78	19	71	48	9	6	35	1.61
5318545--5318670	20	6.6	18	67	20	60	42	3	6	46	1.47
5318527--5318578	26	2.0	26	85	7	70	42	1	9	46	1.47
5318574--5318688	18	6.3	18	67	18	58	44	5	5	45	1.48
5318611--5318666	25	2.2	25	84	6	69	37	5	8	48	1.58
5318646--5318710	29	2.2	28	81	10	69	46	7	3	43	1.48
5318757--5318870	18	6.2	18	70	24	87	42	8	8	40	1.67
5318826--5318905	13	6.1	13	68	18	58	47	7	5	40	1.54
5318816--5318920	33	3.2	33	89	2	140	44	7	5	41	1.56
5318943--5318980	13	2.9	13	96	0	67	34	7	5	52	1.53
5319004--5319172	28	6.4	27	69	23	80	49	5	3	41	1.44
5319046--5319308	15	16.9	15	66	24	86	46	6	5	42	1.52
5318874--5319143	15	16.8	16	66	22	88	45	6	3	44	1.45
5318867--5319342	32	14.8	32	68	24	110	45	6	4	43	1.50
5318880--5319145	2	132.0	2	65	22	96	46	6	3	44	1.44
5319098--5319187	25	3.5	25	73	15	76	48	6	5	38	1.53
5319089--5319245	50	3.2	50	85	11	191	45	6	6	41	1.55
5319108--5319267	47	3.3	47	87	11	220	45	6	6	41	1.56
5319223--5319341	34	3.7	32	93	6	204	45	5	5	43	1.50
5319285--5319382	48	2.0	50	90	4	155	46	7	4	41	1.50
5319174--5319416	113	2.2	114	85	9	331	44	6	5	42	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5319462--5319550	21	4.3	20	66	28	53	47	4	11	37	1.60
5319447--5319593	61	2.4	61	90	1	231	48	6	9	35	1.62
5319814--5319983	91	1.8	92	82	8	220	34	28	4	33	1.76
5319832--5320080	92	2.8	89	79	9	238	34	28	4	32	1.77
5320299--5320362	6	10.7	6	78	6	67	46	45	4	3	1.39
5320325--5320403	24	3.3	24	80	3	88	43	41	6	8	1.61
5320299--5320362	18	3.6	18	80	0	74	46	45	4	3	1.39
5320329--5320371	12	3.6	12	80	0	59	48	41	4	4	1.44
5320356--5320414	18	3.4	17	88	2	73	40	37	8	13	1.75
5323296--5323363	2	34.0	2	87	0	91	47	1	2	48	1.26
5325154--5325217	20	3.2	20	79	2	65	12	9	17	60	1.57
5325308--5325364	23	2.5	23	85	0	78	24	15	26	33	1.95
5326112--5326146	16	2.2	16	89	0	52	42	17	20	20	1.89
5328941--5328979	17	2.3	17	90	0	60	51	0	0	48	1.00
5337610--5337648	20	2.0	20	90	10	62	28	0	0	71	0.86
5344163--5344218	25	2.2	25	100	0	112	41	5	19	33	1.74
5344175--5344218	15	3.3	15	70	29	53	40	4	20	34	1.73
5345892--5345955	6	10.2	6	80	15	51	79	0	17	3	0.85
5345902--5345965	7	9.1	7	83	6	76	79	0	17	3	0.85
5348052--5348132	3	27.7	3	78	14	89	33	1	0	65	1.01
5348037--5348133	21	4.1	23	75	16	92	29	2	1	67	1.09
5349546--5349577	4	8.0	4	100	0	64	25	0	0	75	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5353704--5353735	15	2.1	15	94	0	55	25	18	9	46	1.79
5361050--5361110	15	4.5	13	82	17	72	80	0	13	6	0.90
5361048--5361113	11	6.3	11	76	13	59	75	0	15	9	1.03
5361053--5361099	15	3.2	14	91	8	76	82	0	10	6	0.82
5363487--5363814	112	2.9	112	87	5	452	38	14	18	27	1.90
5364167--5364229	3	21.7	3	78	12	69	31	3	0	65	1.09
5364240--5364307	29	2.5	26	88	7	100	36	39	17	5	1.74
5371026--5371087	24	2.7	23	90	7	99	19	30	22	27	1.98
5371768--5371797	15	2.0	15	100	0	60	33	6	26	33	1.83
5376591--5376737	45	3.3	45	97	0	276	36	12	16	35	1.86

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