genome.fa.s8747.2.7.7.80.10.50.1000.22.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  22  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)
5698979--5699027	19	2.5	20	73	3	55	12	4	10	73	1.22
5698989--5699023	11	3.1	11	84	8	52	0	5	8	85	0.73
5704123--5704190	35	1.9	36	87	3	102	29	2	36	30	1.72
5705892--5705931	6	6.7	6	83	11	55	82	2	15	0	0.77
5709320--5709366	20	2.4	20	89	3	69	34	8	6	51	1.58
5711037--5711088	21	2.6	21	90	6	81	32	13	7	46	1.72
5711922--5711961	6	6.7	6	83	11	55	82	2	15	0	0.77
5711994--5712042	19	2.6	19	100	0	98	71	4	16	8	1.26
5711989--5712050	19	2.8	23	76	23	78	72	3	17	6	1.19
5714697--5714735	6	6.7	6	88	11	55	84	0	15	0	0.62
5714697--5714725	13	2.2	13	100	0	58	86	0	13	0	0.58
5714935--5714983	16	2.9	16	84	6	53	16	20	2	61	1.44
5717464--5717512	16	2.9	16	84	6	53	16	20	2	61	1.44
5720454--5720507	22	2.5	22	93	6	92	22	25	20	31	1.98
5721485--5721524	6	6.7	6	83	11	55	82	2	15	0	0.77
5721724--5721772	16	2.9	16	84	6	53	16	22	0	61	1.34
5722230--5722273	15	2.9	15	86	0	61	50	0	27	22	1.50
5722415--5722555	36	3.9	36	93	0	230	27	4	36	31	1.78
5722432--5722552	11	10.2	11	70	23	77	28	4	35	32	1.76
5730807--5730928	13	10.2	12	71	23	64	29	4	36	30	1.76
5730823--5730926	23	4.4	23	67	27	74	28	4	35	30	1.78
5730789--5730929	36	3.9	36	94	0	239	28	4	36	30	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5731271--5731321	19	2.6	20	87	3	68	45	5	15	33	1.71
5739881--5739937	26	2.1	27	87	3	80	68	5	17	8	1.35
5742942--5743077	42	3.2	42	97	0	263	30	27	2	39	1.71
5770858--5770917	25	2.4	25	72	8	61	13	26	0	60	1.34
5790659--5790698	20	1.9	22	85	10	57	40	12	30	17	1.86
5791804--5791842	19	2.1	19	90	4	62	58	15	15	10	1.62
5794365--5794404	20	1.9	22	85	10	57	40	12	30	17	1.86
5803035--5803077	19	2.2	19	83	4	50	23	30	6	39	1.81
5803047--5803084	19	2.0	19	100	0	76	26	26	10	36	1.89
5804388--5804440	24	2.3	23	81	12	56	32	16	18	32	1.94
5810790--5810873	11	7.0	12	72	22	54	28	3	36	30	1.74
5810770--5810874	36	2.9	36	92	1	167	26	4	37	31	1.77
5812931--5813016	13	7.2	12	72	22	58	29	3	37	30	1.74
5812913--5813017	36	2.9	36	94	1	176	27	4	37	30	1.77
5818134--5818176	19	2.2	20	91	4	70	37	13	6	41	1.72
5818134--5818184	20	2.6	19	90	3	75	35	15	5	43	1.71
5818953--5818990	19	2.0	19	85	10	51	81	5	13	0	0.85
5819014--5819060	14	3.1	15	75	12	51	72	6	19	2	1.17
5822269--5822311	19	2.2	20	91	4	70	37	13	6	41	1.72
5822269--5822319	20	2.6	19	90	3	75	35	15	5	43	1.71
5822836--5822865	15	1.9	16	93	6	53	20	26	0	53	1.46
5825492--5825543	19	2.6	21	87	6	72	46	3	13	36	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5829421--5829472	21	2.6	21	87	6	72	44	5	15	34	1.70
5840242--5840266	8	3.1	8	100	0	50	76	0	24	0	0.80
5840225--5840276	16	3.1	16	81	13	52	75	1	21	1	1.00
5841731--5841770	20	1.9	22	85	10	57	40	12	30	17	1.86
5845433--5845472	20	1.9	22	85	10	57	40	12	30	17	1.86
5848961--5848998	18	2.1	18	90	0	58	31	36	10	21	1.87
5855480--5855531	21	2.6	21	90	6	81	34	13	5	46	1.67
5856975--5857012	18	2.1	18	90	0	58	31	36	10	21	1.87
5862587--5862921	167	2.0	167	95	0	607	39	18	13	27	1.89
5864028--5864112	11	7.2	11	72	22	66	31	36	3	28	1.74
5864025--5864129	36	2.9	36	94	1	176	30	37	4	27	1.77
5864506--5864548	17	2.5	17	82	17	54	79	2	13	4	1.00
5869742--5869826	11	7.2	11	72	22	66	31	35	3	29	1.75
5869739--5869841	36	2.9	36	92	1	163	30	35	4	29	1.78
5870653--5870692	17	2.3	18	87	12	66	0	17	10	72	1.11
5870653--5870697	16	2.7	17	90	10	67	0	17	8	73	1.08
5872923--5872966	14	3.1	14	76	0	52	47	4	25	22	1.70
5872921--5872961	21	2.0	21	90	0	64	53	2	21	21	1.57
5873002--5873041	21	1.9	21	94	0	71	27	27	20	25	1.99
5879283--5879831	272	2.0	275	96	3	1020	34	15	10	40	1.81
5880671--5880723	21	2.6	21	90	3	81	33	13	7	45	1.71
5886813--5886852	10	3.9	10	84	15	55	2	0	7	90	0.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5886814--5886854	20	2.0	21	95	4	75	4	0	7	87	0.65
5893969--5894025	26	2.1	27	83	3	71	10	17	5	66	1.40
5895714--5895756	20	2.2	20	87	4	61	34	9	6	48	1.62
5896847--5896880	17	2.0	17	94	0	59	32	32	0	35	1.58
5899759--5899801	20	2.2	20	87	4	61	34	9	6	48	1.62
5908108--5908228	23	5.1	23	71	24	83	31	36	4	28	1.76
5908108--5908228	11	10.2	11	71	23	86	31	36	4	28	1.76
5908105--5908245	36	3.9	36	96	0	248	30	36	4	27	1.78
5912304--5912388	11	7.2	11	72	22	66	31	36	3	28	1.74
5912301--5912405	36	2.9	36	94	1	176	30	37	4	27	1.77
5912547--5912590	15	2.9	15	89	0	70	20	25	0	54	1.45
5913818--5913867	16	3.0	16	85	5	55	62	0	22	16	1.33
5914066--5914111	6	7.7	6	83	7	58	2	15	2	80	0.91
5914381--5914454	22	3.5	22	67	20	68	24	13	20	41	1.88
5914382--5914461	40	2.0	40	100	0	160	25	17	20	37	1.94
5915945--5915983	20	2.0	19	85	5	51	46	10	12	30	1.75
5919345--5919396	24	2.2	24	82	0	59	28	17	21	32	1.96
5920668--5920720	23	2.3	23	83	6	72	9	15	13	62	1.54
5922999--5923050	23	2.2	25	86	6	72	65	0	7	26	1.20
5923458--5923509	19	2.6	21	84	6	72	46	5	13	34	1.67
5926024--5926099	33	2.3	33	100	0	152	22	25	19	32	1.97
5926024--5926114	33	2.8	33	91	3	112	24	25	20	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5929052--5929090	19	2.1	19	90	4	62	58	15	15	10	1.62
5934566--5934605	20	1.9	20	85	10	53	32	7	32	27	1.85
5939261--5939306	19	2.3	19	85	7	56	50	6	8	34	1.59
5940336--5940381	22	2.0	22	83	12	56	52	13	2	32	1.52
5944022--5944059	10	3.6	10	92	7	58	0	2	7	89	0.57
5947891--5947915	8	3.1	8	100	0	50	76	0	24	0	0.80
5957184--5957283	51	2.0	50	96	3	184	51	2	22	25	1.59
5972776--5972938	89	1.8	89	84	2	220	30	21	15	33	1.94
5973339--5973386	16	2.9	16	84	6	51	62	0	20	16	1.33
5973586--5973620	6	5.7	6	86	6	52	0	14	2	82	0.77
5973586--5973620	13	2.8	12	87	8	52	0	14	2	82	0.77
5973836--5973890	25	2.2	25	93	0	92	50	3	21	23	1.64
5980113--5980160	20	2.3	21	89	3	71	22	14	14	47	1.81
5982555--5982606	19	2.7	19	87	0	77	34	11	9	44	1.73
5984356--5984440	11	7.2	11	72	22	66	31	36	3	28	1.74
5984353--5984441	36	2.5	36	96	1	162	30	37	4	28	1.77
5984822--5984869	24	2.0	23	84	11	62	79	4	16	0	0.89
5984810--5985013	66	3.1	65	69	19	195	63	11	16	9	1.52
5984810--5985072	132	2.0	130	94	4	467	63	10	16	9	1.51
5990173--5990226	22	2.4	23	87	3	74	31	40	3	24	1.72
5992926--5992965	19	2.0	20	90	4	64	20	15	0	65	1.28
5992922--5992968	19	2.6	18	83	12	60	19	14	0	65	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5994347--5994548	45	4.5	45	95	0	361	30	23	7	37	1.84
5995733--5995784	19	2.6	21	90	6	81	46	7	13	32	1.72
5998674--5998710	15	2.6	15	87	8	51	89	0	10	0	0.49
6001852--6001905	23	2.3	24	83	3	74	61	11	16	11	1.57
6004666--6004717	24	2.2	24	82	0	59	28	19	23	28	1.98
6005983--6006034	23	2.3	22	83	3	68	9	13	13	63	1.52
6017691--6017892	45	4.5	45	87	0	298	32	21	7	38	1.81
6020034--6020063	15	2.0	15	93	0	51	56	0	26	16	1.40
6020229--6020293	13	5.4	12	75	21	57	29	3	35	32	1.73
6020211--6020315	36	2.9	36	94	1	176	28	4	35	31	1.78

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