genome.fa.s7999.2.7.7.80.10.50.1000.19.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  19  of  50  ( 5918 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)
5012391--5012441	10	5.3	10	76	23	56	68	0	0	31	0.90
5012482--5012524	18	2.4	18	88	0	59	72	0	4	23	1.04
5013117--5013305	76	2.6	75	85	7	246	55	14	1	29	1.46
5013187--5013233	19	2.5	19	79	3	51	55	14	0	29	1.40
5017097--5017194	42	2.3	42	96	0	178	34	25	10	29	1.89
5020234--5020264	15	2.1	15	93	0	53	35	19	3	41	1.67
5021396--5021455	21	3.0	21	78	14	63	60	28	0	11	1.32
5021833--5021866	11	3.2	11	91	4	52	35	5	29	29	1.81
5027084--5027124	21	1.9	22	90	5	66	24	26	12	36	1.91
5028124--5028189	33	2.0	34	82	8	82	60	3	7	28	1.39
5028322--5028461	73	1.9	73	95	0	253	57	11	3	27	1.50
5030397--5030513	52	2.3	51	92	1	198	23	18	12	44	1.85
5035662--5035714	27	2.0	27	96	0	97	11	16	47	24	1.80
5035672--5035716	12	3.5	12	77	16	54	11	15	48	24	1.77
5038956--5039090	72	1.9	72	90	0	216	56	12	2	28	1.48
5045065--5045118	27	2.0	27	100	0	108	18	18	18	44	1.87
5053039--5053077	19	2.1	19	90	0	60	43	7	17	30	1.77
5055020--5055084	12	5.4	12	72	7	51	49	15	12	23	1.78
5055081--5055132	24	2.2	24	89	6	79	36	19	21	23	1.95
5062906--5062953	21	2.3	22	79	17	57	22	29	4	43	1.72
5065823--5065889	30	2.2	30	100	0	134	31	8	8	50	1.64
5071748--5071802	27	2.0	28	89	3	85	45	1	0	52	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5072100--5072130	16	1.9	16	93	0	53	61	0	3	35	1.12
5072150--5072212	27	2.4	25	77	15	63	53	1	3	41	1.26
5076763--5076939	92	1.9	91	88	3	266	37	18	20	23	1.94
5077284--5078300	57	17.8	57	87	2	1402	33	12	19	34	1.89
5077287--5078300	455	2.2	454	87	3	1428	33	12	19	35	1.89
5086557--5086601	23	2.0	23	90	0	72	20	13	31	35	1.91
5114518--5114557	20	2.0	20	100	0	80	25	20	10	45	1.81
5117675--5117711	16	2.3	16	100	0	74	56	0	0	43	0.99
5121126--5121151	13	2.0	13	100	0	52	46	15	15	23	1.83
5121929--5121971	18	2.5	17	82	14	52	65	2	0	32	1.06
5121923--5121972	21	2.5	20	83	6	57	66	2	0	32	1.03
5132046--5132100	17	3.2	17	78	17	60	50	7	7	34	1.58
5135531--5135575	19	2.4	18	82	7	54	48	17	6	26	1.72
5143430--5143492	26	2.6	23	74	13	63	28	22	22	26	1.99
5145133--5145186	24	2.2	24	100	0	108	35	16	18	29	1.93
5147474--5147512	12	3.2	12	92	0	60	38	2	30	28	1.70
5173895--5173935	23	1.9	22	85	14	59	2	31	4	60	1.30
5177994--5178315	45	7.1	45	84	3	357	42	11	22	24	1.85
5177994--5178324	135	2.4	135	87	4	443	43	10	21	23	1.84
5193571--5193709	24	6.0	22	72	18	88	76	0	15	7	1.03
5193571--5193717	8	19.4	7	72	20	68	76	0	14	7	1.03
5193590--5193717	15	8.4	14	69	26	75	76	0	14	7	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5193620--5193720	39	2.6	40	80	14	124	77	0	16	5	0.96
5193578--5193718	47	3.1	45	74	20	132	77	0	14	7	1.02
5195038--5195452	51	8.0	51	90	3	551	29	15	26	28	1.96
5200241--5200307	21	3.1	21	91	2	107	41	8	11	37	1.73
5200343--5200399	22	2.6	21	72	10	51	24	15	22	36	1.94
5200983--5201012	2	15.0	2	100	0	60	50	0	0	50	1.00
5204593--5204625	17	2.0	16	94	5	57	30	0	0	69	0.88
5206192--5206277	38	2.3	39	76	8	88	40	2	0	56	1.12
5213698--5213757	26	2.3	27	88	8	90	43	20	13	23	1.86
5216084--5216314	39	5.8	39	83	4	246	45	13	5	35	1.66
5216302--5216357	28	2.0	28	85	0	76	48	16	8	26	1.75
5216377--5216548	39	4.4	39	78	5	195	40	13	5	40	1.68
5216377--5216548	79	2.2	78	87	4	240	40	13	5	40	1.68
5216534--5216703	94	1.8	93	85	3	243	39	13	5	41	1.69
5216676--5216819	44	3.4	41	81	13	159	47	12	3	36	1.58
5216823--5216959	58	2.3	59	83	3	179	48	10	5	35	1.61
5217026--5217170	58	2.5	58	81	8	170	42	12	7	37	1.71
5217477--5217509	14	2.3	15	89	5	50	57	15	3	24	1.52
5228111--5228154	21	2.1	21	83	8	54	11	36	13	38	1.81
5228930--5228969	20	2.0	21	85	14	57	42	5	7	45	1.54
5244501--5244700	104	1.9	104	90	4	323	27	11	25	37	1.89
5244501--5244727	104	2.2	104	85	10	320	25	11	23	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5244501--5244757	104	2.5	103	79	15	280	26	11	22	38	1.89
5244882--5245684	139	5.9	137	72	8	555	26	15	23	34	1.94
5244865--5245594	274	2.7	265	81	5	867	27	14	23	34	1.94
5247829--5247908	21	3.7	21	80	9	90	22	8	26	42	1.82
5247826--5247912	44	2.0	44	90	4	140	24	8	27	40	1.83
5255081--5255137	21	2.6	21	81	15	71	26	10	24	38	1.88
5256359--5256461	36	2.8	36	76	8	93	37	12	16	33	1.86
5256332--5256550	102	2.2	98	85	5	280	37	10	17	33	1.85
5258259--5258319	25	2.5	24	82	10	72	59	1	8	31	1.37
5259174--5259215	15	2.9	15	86	6	52	0	21	0	78	0.75
5261593--5261853	87	3.0	85	65	20	225	35	22	3	39	1.70
5261593--5261940	174	2.0	174	98	1	680	34	22	3	39	1.71
5263280--5263368	29	3.0	29	73	4	70	33	19	5	41	1.74
5264244--5264316	21	3.2	24	66	15	73	36	28	13	20	1.91
5264234--5264323	44	2.0	44	100	0	180	38	26	13	21	1.90
5265043--5265107	17	3.8	17	74	11	69	66	3	16	13	1.38
5265047--5265119	35	2.1	35	92	0	119	64	4	16	15	1.44
5269029--5269068	21	2.0	20	85	5	53	37	20	15	27	1.92
5286081--5286120	21	1.9	21	94	0	71	22	27	20	30	1.98
5286216--5286284	20	3.7	19	73	26	67	26	17	31	24	1.97
5286509--5286565	21	2.9	19	82	14	80	47	12	10	29	1.74
5286509--5286566	18	3.1	18	85	11	80	48	12	10	29	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5287676--5287738	19	3.4	19	80	6	67	36	11	1	50	1.47
5288591--5288656	32	2.1	32	82	0	78	21	27	16	34	1.95
5289737--5289770	17	1.9	18	88	5	52	41	17	11	29	1.85
5295163--5295210	21	2.3	20	82	3	60	22	8	35	33	1.84
5302976--5303125	15	9.5	15	76	15	133	44	0	4	51	1.25
5303087--5303143	18	3.4	18	69	18	59	33	0	12	54	1.38
5303073--5303148	32	2.4	32	97	0	143	36	0	9	53	1.33
5303096--5303814	54	13.6	54	72	16	544	34	0	13	52	1.42
5303049--5303799	80	9.5	82	80	15	706	34	0	13	52	1.42
5303212--5303558	22	13.8	22	66	22	118	34	0	13	51	1.43
5303096--5303799	210	3.3	203	76	12	731	33	0	13	52	1.43
5303547--5303600	14	3.6	14	72	18	54	37	0	5	57	1.22
5303602--5303745	26	5.6	25	72	19	102	31	0	15	52	1.43
5303762--5303804	22	2.0	22	100	0	86	34	0	13	51	1.42
5303829--5303887	31	1.9	31	92	0	100	42	10	6	40	1.65
5303907--5303947	16	2.6	16	96	0	73	24	2	7	65	1.30
5306635--5306694	21	2.9	21	72	5	59	18	18	26	36	1.94
5307387--5307417	5	6.4	5	96	3	55	0	41	22	35	1.54
5307418--5307444	6	4.5	6	100	0	54	0	14	51	33	1.43
5307556--5307609	22	2.5	22	93	0	99	38	27	16	16	1.90
5309143--5309172	13	2.3	13	94	0	51	16	26	40	16	1.90
5309454--5309491	6	6.5	6	96	3	69	0	15	52	31	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5309593--5309667	22	3.4	22	96	0	141	37	28	17	17	1.92
5310282--5310328	23	2.0	23	100	0	94	42	12	0	44	1.42
5311333--5311407	39	1.9	39	88	0	114	44	18	8	29	1.78
5312917--5313124	76	2.7	76	87	1	283	24	31	24	20	1.98
5318894--5318955	23	2.9	21	85	7	81	20	35	25	17	1.95
5320934--5320975	17	2.7	15	82	13	57	14	0	28	57	1.38
5320938--5320971	17	2.0	17	94	0	59	11	0	32	55	1.36
5321580--5321790	76	2.8	76	86	2	280	23	31	23	20	1.98
5322922--5322978	30	1.9	30	96	0	105	15	14	8	61	1.56
5322922--5322986	30	2.3	29	87	10	91	15	12	7	64	1.48

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