genome.fa.s8716.2.7.7.80.10.50.1000.21.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

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   

This is table  21  of  24  ( 2813 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)
5035589--5036573	496	2.0	496	94	0	1740	28	21	12	37	1.89
5050094--5050226	69	1.9	70	89	1	205	34	18	9	37	1.83
5050380--5050411	16	2.0	16	93	0	55	56	21	12	9	1.64
5050477--5050551	10	7.7	10	69	21	61	58	20	10	10	1.60
5050484--5050550	16	4.2	16	86	0	89	59	20	8	10	1.57
5050483--5050546	32	2.0	32	93	0	110	57	20	10	10	1.62
5051775--5051841	33	2.2	29	78	19	75	29	17	26	25	1.98
5052066--5052127	24	2.6	24	86	0	88	53	22	11	12	1.71
5052064--5052150	34	2.6	34	75	3	86	50	21	11	16	1.76
5055052--5055142	45	2.0	46	89	2	139	27	24	19	28	1.99
5061260--5061310	6	8.0	6	76	20	50	78	5	1	13	1.02
5061261--5061310	13	3.8	13	75	15	50	80	6	2	12	0.98
5061260--5061310	20	2.6	21	84	9	63	78	5	1	13	1.02
5061383--5061430	23	2.0	24	84	11	64	70	6	12	10	1.32
5067078--5067102	7	3.6	7	100	0	50	56	0	0	44	0.99
5067127--5067172	2	23.0	2	100	0	92	50	0	0	50	1.00
5071257--5071300	18	2.4	18	100	0	88	59	0	31	9	1.29
5071480--5071510	6	5.2	6	96	0	53	51	0	0	48	1.00
5072865--5072909	20	2.2	21	80	11	58	37	0	4	57	1.19
5073734--5073778	20	2.2	21	80	11	58	37	0	4	57	1.19
5074759--5074823	3	21.3	3	87	9	96	32	0	1	66	1.01
5074759--5074823	16	4.0	16	95	2	112	32	0	1	66	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5074981--5075032	27	1.9	27	84	7	70	26	5	21	46	1.74
5075779--5076330	139	4.0	139	91	0	861	30	13	12	42	1.82
5089089--5089125	16	2.2	16	90	9	56	72	2	2	21	1.09
5097326--5097428	21	4.7	23	72	13	67	24	19	23	33	1.97
5097348--5097399	22	2.3	23	90	3	79	23	21	25	30	1.99
5103618--5104206	139	4.3	139	85	4	786	30	13	12	43	1.82
5103618--5104365	268	2.8	270	81	8	793	30	14	12	42	1.82
5104089--5104327	121	2.0	121	85	0	325	30	13	13	42	1.83
5106310--5107055	139	5.4	139	86	2	982	30	13	12	43	1.81
5106309--5107055	279	2.7	274	86	4	1023	30	13	12	43	1.81
5109582--5109671	15	6.2	15	73	15	73	56	5	12	25	1.57
5109559--5109671	14	7.9	14	69	12	59	57	7	12	23	1.59
5112446--5112488	10	4.5	10	85	8	63	2	13	0	83	0.74
5112446--5112488	19	2.3	18	84	7	59	2	13	0	83	0.74
5116429--5116465	19	2.0	20	89	10	60	51	10	18	18	1.75
5119459--5119489	16	1.9	16	93	0	53	67	3	9	19	1.33
5119650--5119723	29	2.6	29	84	0	94	62	5	13	18	1.50
5119850--5119946	31	3.1	31	90	0	149	38	6	20	35	1.78
5120157--5120192	15	2.4	15	90	9	56	66	11	8	13	1.44
5126780--5126834	28	2.0	28	85	3	76	49	16	10	23	1.77
5131445--5131501	28	2.1	28	90	3	89	49	14	12	24	1.77
5131451--5131512	28	2.3	27	83	10	81	50	12	12	24	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5133328--5133837	255	2.0	255	99	0	1013	23	18	25	31	1.97
5135772--5135838	21	3.2	21	64	27	52	56	8	10	23	1.61
5135783--5135850	18	3.2	22	69	23	72	51	10	11	26	1.70
5135788--5135865	24	3.5	22	69	22	65	52	11	10	25	1.69
5135775--5135873	42	2.3	42	92	1	162	52	11	10	26	1.68
5142984--5143022	21	1.9	21	94	5	71	30	20	10	38	1.86
5143867--5143909	12	3.5	11	82	17	50	79	4	0	16	0.90
5145178--5145337	83	1.9	84	84	1	214	23	18	26	30	1.98
5145372--5145662	36	8.2	36	76	11	305	39	12	18	29	1.87
5145409--5145662	138	1.8	138	88	1	393	39	11	18	29	1.86
5145371--5145689	174	1.8	173	86	6	464	39	12	19	28	1.88
5146401--5146601	110	1.9	106	90	4	321	24	16	23	35	1.95
5149202--5149417	110	2.0	109	94	0	378	38	24	11	25	1.88
5150455--5150485	12	2.6	12	100	0	62	77	6	0	16	0.97
5151374--5151410	19	2.1	18	90	10	58	24	0	48	27	1.51
5151459--5151511	3	16.7	3	88	11	79	67	0	0	32	0.91
5151459--5151511	10	5.5	10	93	6	76	67	0	0	32	0.91
5152252--5152291	18	2.3	17	91	4	62	12	12	0	75	1.06
5155886--5155922	2	18.5	2	100	0	74	51	0	0	48	1.00
5158883--5159070	21	8.8	21	74	4	133	36	22	15	24	1.94
5158887--5159070	42	4.3	42	72	5	161	37	22	15	23	1.93
5159826--5159876	18	2.5	20	81	12	61	23	33	15	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5168813--5168845	13	2.5	14	85	14	52	66	6	0	27	1.15
5169057--5169466	2	204.0	2	71	17	237	49	2	5	42	1.39
5169312--5169509	44	4.8	43	75	18	154	50	2	6	41	1.40
5169470--5169573	8	14.3	7	75	22	63	57	2	6	32	1.39
5169473--5169533	29	2.1	29	90	6	97	57	3	6	32	1.41
5169232--5169575	43	8.0	43	71	18	170	51	2	6	38	1.43
5169778--5169865	37	2.4	37	98	0	167	23	26	7	42	1.82
5170632--5170688	29	2.0	29	96	0	105	15	36	7	40	1.75
5171796--5171871	38	2.0	38	92	0	125	26	6	14	52	1.66
5172567--5172611	23	2.0	23	81	0	54	24	2	4	68	1.19
5172573--5172622	23	2.2	23	82	3	66	24	0	4	72	1.02
5173275--5173329	20	2.8	20	88	0	74	14	9	18	58	1.62
5173425--5173478	23	2.3	24	90	6	85	27	12	25	33	1.93
5173904--5173948	22	2.0	24	86	8	67	46	0	2	51	1.13
5173910--5173954	22	2.0	22	83	8	56	44	2	2	51	1.26
5175614--5175714	42	2.4	42	90	6	150	44	6	15	32	1.73
5184726--5184771	24	2.0	22	83	8	56	63	10	2	23	1.38
5185813--5185859	20	2.4	19	86	10	67	57	8	17	17	1.63
5185600--5186073	181	2.6	182	88	2	686	42	13	16	26	1.86
5185985--5186040	20	2.8	19	76	7	58	55	8	14	21	1.66
5188230--5188294	21	3.1	21	93	0	103	41	10	30	16	1.83
5188328--5188393	33	2.0	33	90	0	105	28	0	48	22	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5190629--5190685	3	19.0	3	74	0	51	36	7	31	24	1.82
5190621--5190659	12	3.2	12	77	0	51	38	12	30	17	1.88
5190649--5190681	15	2.2	15	94	0	57	36	6	33	24	1.80
5190625--5190685	12	5.1	12	81	0	59	36	8	31	24	1.85
5191887--5192827	183	5.1	183	95	1	1647	35	14	16	32	1.90
5195668--5195740	23	3.2	23	92	0	119	34	5	21	38	1.77
5196158--5196230	23	3.2	23	92	0	110	35	2	21	39	1.68
5195321--5196630	490	2.7	490	97	0	2486	41	7	10	39	1.68
5211411--5211486	23	3.2	23	76	12	82	50	3	6	39	1.47
5211409--5211489	26	3.3	25	75	15	87	50	3	6	39	1.45
5211923--5211977	28	2.0	28	85	0	74	61	12	7	18	1.53
5213138--5213219	42	2.0	42	90	0	128	39	14	21	24	1.91
5218043--5218097	20	2.8	20	73	15	60	32	29	18	20	1.96
5218081--5218178	21	4.7	21	69	15	69	37	21	20	20	1.94
5218146--5218481	20	16.6	20	73	11	163	38	23	17	19	1.93
5218208--5218480	40	6.8	40	84	6	311	38	23	18	19	1.93
5219336--5219389	24	2.2	24	93	0	90	20	18	20	40	1.91
5221808--5221848	14	2.9	14	96	0	73	41	26	21	9	1.84
5221836--5221924	20	4.4	21	79	8	96	37	23	19	20	1.94
5221836--5221924	40	2.2	40	84	11	121	37	23	19	20	1.94
5221929--5221975	20	2.4	19	89	3	76	51	14	17	17	1.77
5221929--5221982	20	2.8	20	85	2	65	50	14	18	16	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5221994--5222086	16	5.3	19	68	27	80	15	22	18	44	1.87
5221993--5222122	34	3.8	34	90	4	199	14	23	20	42	1.88
5222224--5222260	14	2.6	14	86	0	56	48	21	0	29	1.50
5224207--5224275	20	3.5	20	91	0	102	36	23	20	20	1.95
5224419--5224797	94	4.1	94	94	2	629	47	18	12	22	1.81
5224419--5224797	187	2.0	188	92	2	629	47	18	12	22	1.81
5225161--5225244	21	4.1	21	67	20	52	17	11	41	28	1.85
5226501--5226556	20	2.8	20	78	10	78	41	17	23	17	1.90
5226532--5226613	33	2.5	33	85	0	119	45	18	21	14	1.85
5226614--5226694	33	2.5	33	87	0	108	13	19	19	46	1.83

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