genome.fa.s9643.2.7.7.80.10.50.1000.28.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  28  of  41  ( 4862 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)
5888481--5888553	23	3.2	23	98	0	137	35	21	8	34	1.84
5888572--5888616	22	2.0	22	86	0	63	37	11	11	40	1.76
5888972--5889044	23	3.2	23	86	0	101	38	19	5	36	1.75
5889457--5889529	23	3.3	21	79	11	56	38	19	5	36	1.75
5889475--5889534	23	2.6	23	91	0	93	36	20	5	38	1.74
5888076--5892913	490	9.9	490	96	0	8830	40	11	7	41	1.69
5888076--5892913	979	4.9	979	97	0	8900	40	11	7	41	1.69
5889951--5890023	23	3.2	23	90	0	110	38	20	5	35	1.76
5890441--5890513	23	3.2	23	90	0	110	38	20	5	35	1.76
5890929--5891001	23	3.2	23	84	0	92	39	17	5	36	1.73
5891414--5891486	23	3.3	21	79	11	56	38	19	5	36	1.75
5891432--5891491	23	2.6	23	91	0	93	36	20	5	38	1.74
5891909--5891981	23	3.2	23	88	0	101	38	19	5	36	1.75
5892408--5892470	23	2.7	23	95	0	108	39	20	3	36	1.69
5894584--5895703	200	5.6	200	94	0	1929	31	18	14	35	1.91
5894584--5895913	400	3.4	400	91	3	2094	30	18	14	36	1.91
5895509--5895874	171	2.1	173	89	6	569	30	19	13	36	1.90
5896139--5896199	19	3.3	18	88	2	59	52	11	1	34	1.47
5896151--5896199	19	2.6	19	96	0	89	55	10	2	32	1.45
5897991--5898056	33	2.0	33	90	0	105	22	48	0	28	1.51
5898089--5898154	21	3.1	21	91	0	96	16	28	10	43	1.81
5899468--5899953	42	11.9	42	73	7	288	30	19	17	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5899461--5899939	164	2.9	162	85	2	627	30	19	16	33	1.94
5899717--5899959	122	2.0	121	82	7	294	30	20	16	32	1.95
5901378--5901444	31	2.3	29	87	10	93	47	8	14	28	1.75
5905078--5905426	43	8.1	43	94	0	538	24	26	21	28	1.99
5906569--5906615	20	2.4	19	82	10	67	19	17	10	53	1.72
5906536--5906949	181	2.3	182	89	0	614	28	16	13	41	1.86
5911766--5911821	29	1.9	29	96	0	103	33	1	12	51	1.50
5931370--5931412	22	2.0	22	82	17	54	32	39	4	23	1.75
5934825--5934892	34	2.0	34	82	5	84	25	5	23	45	1.75
5935595--5935635	15	2.7	15	96	0	73	41	24	12	21	1.87
5935956--5935998	22	2.0	22	82	17	54	32	39	4	23	1.75
5953552--5953807	136	1.9	136	95	0	458	30	31	13	24	1.94
5968848--5968916	34	2.1	33	83	8	86	78	2	5	13	1.05
5968882--5968938	19	2.8	20	78	7	62	73	1	7	17	1.14
5970100--5970551	37	12.6	37	72	15	226	44	5	3	46	1.44
5970106--5970185	38	2.1	37	83	4	97	45	5	1	48	1.32
5970100--5970504	104	3.8	105	74	13	298	44	6	3	46	1.44
5970262--5970319	29	1.9	30	93	6	100	46	8	0	44	1.34
5970892--5970949	16	3.4	17	79	13	66	46	0	3	50	1.18
5972066--5972119	28	2.0	27	85	10	74	51	5	1	40	1.36
5977052--5977135	33	2.5	33	92	0	132	29	19	19	32	1.96
5979921--5979977	23	2.4	23	75	13	62	42	8	3	45	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5994753--5994839	23	3.7	23	74	17	88	20	26	26	26	1.99
6002468--6002520	18	2.9	18	94	0	88	26	32	20	20	1.98
6003184--6003232	18	2.8	18	90	3	73	20	18	18	42	1.89
6005547--6005643	21	4.6	21	76	2	97	46	5	17	30	1.70
6005544--6005643	42	2.4	42	84	1	137	46	5	18	31	1.70
6005653--6005697	17	2.6	18	92	7	83	46	0	0	53	1.00
6008874--6008910	2	18.5	2	100	0	74	48	0	0	51	1.00
6013259--6013300	20	2.2	20	82	4	50	57	2	0	40	1.12
6013895--6013937	22	2.0	22	86	4	61	39	4	4	51	1.44
6017903--6018405	215	2.3	216	92	2	832	52	7	10	29	1.63
6018489--6018763	2	137.0	2	65	21	87	46	4	4	44	1.44
6018613--6018650	11	3.5	11	88	0	58	50	2	2	44	1.30
6018633--6018749	37	3.0	39	69	17	100	47	2	3	47	1.33
6018819--6018879	20	3.4	20	68	29	64	40	6	1	50	1.38
6018821--6018936	33	3.7	32	78	13	132	40	6	5	47	1.53
6018881--6019043	18	8.7	18	71	19	111	41	8	7	42	1.65
6018836--6018965	33	4.4	30	75	20	114	41	7	6	44	1.58
6018910--6019043	42	3.3	42	78	12	170	41	8	7	43	1.63
6019056--6019104	24	2.0	24	84	7	64	42	8	10	38	1.68
6019110--6019218	2	52.0	2	69	18	53	45	6	1	45	1.39
6019098--6019158	18	3.6	18	72	18	58	47	6	0	45	1.28
6019038--6019349	20	14.4	20	66	20	69	46	8	3	41	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6019124--6019183	27	2.3	26	85	5	84	41	6	1	50	1.39
6019333--6019414	33	2.5	33	91	0	128	45	8	6	40	1.60
6019307--6019465	84	1.9	83	88	2	228	45	6	5	42	1.54
6019365--6019575	58	3.8	54	91	5	293	43	7	7	41	1.61
6019407--6019645	33	7.8	33	71	19	180	42	6	7	43	1.58
6019366--6019575	109	1.9	112	89	6	327	42	7	7	41	1.62
6019621--6019648	2	14.0	2	100	0	56	50	0	0	50	1.00
6020024--6020367	111	2.9	114	84	9	419	29	28	6	35	1.83
6020134--6020367	122	1.9	123	90	2	373	28	29	7	34	1.85
6023105--6023182	23	3.3	23	89	1	111	25	16	21	35	1.94
6027800--6027847	19	2.5	19	100	0	96	27	22	29	20	1.99
6028481--6028558	23	3.3	23	81	1	93	24	20	23	32	1.98
6030760--6030805	20	2.3	20	88	0	65	13	10	19	56	1.66
6043453--6043494	20	2.0	21	86	4	59	61	2	2	33	1.21
6049287--6049318	2	16.0	2	93	0	55	46	0	3	50	1.17
6049814--6049866	8	6.5	8	82	4	52	11	5	3	79	1.03
6049895--6049953	23	2.5	22	79	15	57	15	5	3	76	1.10
6049899--6049932	14	2.5	13	86	9	50	11	5	2	79	1.02
6061008--6061962	106	9.0	106	92	0	1495	33	24	18	22	1.97
6064060--6064105	2	23.5	2	95	4	85	50	0	0	50	1.00
6064060--6064112	8	7.3	7	91	8	56	47	1	0	50	1.12
6064256--6064293	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6064378--6064481	36	2.8	35	81	11	93	16	6	3	73	1.20
6064496--6064524	3	9.7	3	100	0	58	31	0	0	68	0.89
6086853--6086885	16	2.0	17	88	5	50	30	6	30	33	1.82
6091712--6091744	2	16.5	2	100	0	66	48	0	0	51	1.00
6096639--6096766	61	2.1	62	91	1	204	46	29	10	12	1.76
6112916--6113365	225	2.0	225	85	1	616	29	20	20	29	1.98
6119153--6119190	19	2.0	20	94	5	69	28	15	28	26	1.96
6119158--6119296	63	2.2	63	84	2	172	33	18	20	27	1.96
6120613--6120648	18	2.0	18	100	0	72	11	22	33	33	1.89
6120510--6120752	121	2.0	121	97	0	459	25	15	23	35	1.94
6120525--6120715	59	3.2	59	63	25	146	26	15	22	35	1.94
6120759--6120819	23	2.7	23	89	0	95	19	26	27	26	1.99
6124624--6124661	19	2.0	20	94	5	69	28	15	28	26	1.96
6124629--6124787	63	2.5	62	86	4	203	32	19	22	26	1.97
6126100--6126135	18	2.0	18	100	0	72	11	22	33	33	1.89
6126071--6126258	62	3.1	62	61	26	146	25	14	24	35	1.94
6125997--6126360	121	3.0	121	97	0	692	25	15	24	35	1.94
6126221--6126256	18	2.0	18	100	0	72	11	22	33	33	1.89
6126012--6126317	59	5.1	59	60	26	140	25	15	23	34	1.94
6126366--6126427	23	2.7	23	89	0	97	22	24	25	27	2.00
6130107--6130141	17	2.1	17	89	10	54	65	0	5	28	1.15
6131398--6131426	14	2.1	14	100	0	58	48	13	0	37	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6142330--6142385	28	2.1	26	86	6	76	25	5	8	60	1.47
6155487--6155532	24	1.9	24	95	0	83	45	10	41	2	1.51
6156476--6156520	22	2.0	22	82	4	54	31	31	26	11	1.91
6157908--6158130	105	2.1	104	82	0	257	22	16	21	39	1.92
6158147--6158192	24	2.0	24	86	4	67	23	26	26	23	2.00
6164880--6164914	2	18.0	2	94	5	63	51	0	0	48	1.00
6165062--6165366	103	3.0	102	92	3	499	41	8	5	44	1.57
6167752--6167792	12	3.1	13	80	19	57	46	14	17	21	1.84
6167746--6167791	12	3.6	12	81	16	56	45	17	19	17	1.85
6170096--6170135	21	1.9	21	94	0	71	30	15	7	47	1.72

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