genome.fa.s7823.2.7.7.80.10.50.1000.30.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   

This is table  30  of  33  ( 3920 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)
5552660--5552708	16	3.1	15	91	5	71	32	0	0	67	0.91
5553208--5553235	11	2.5	11	100	0	56	85	0	7	7	0.73
5554144--5554188	2	22.5	2	100	0	90	48	0	0	51	1.00
5554360--5554401	15	2.6	16	82	17	52	33	4	0	61	1.17
5554473--5554520	23	2.1	22	85	11	62	56	2	0	41	1.11
5555987--5556015	15	2.0	15	93	6	51	62	0	10	27	1.28
5560080--5560128	21	2.3	21	85	0	62	40	4	38	16	1.67
5562949--5562990	21	2.0	22	85	4	59	26	0	45	28	1.54
5563670--5563729	21	2.9	21	89	0	93	21	26	28	23	1.99
5569918--5569978	32	1.9	32	93	0	104	18	8	16	57	1.63
5570968--5571244	83	3.4	81	83	3	277	28	20	17	33	1.95
5571000--5571252	83	3.0	83	85	0	335	26	20	18	33	1.96
5571138--5571372	118	2.0	118	83	1	301	27	17	17	37	1.92
5571055--5571453	201	2.0	201	81	4	475	27	18	17	36	1.93
5571256--5571637	83	4.6	83	82	2	401	29	18	17	34	1.94
5571256--5571634	165	2.3	165	83	1	454	29	18	17	35	1.93
5571745--5571796	16	3.3	16	74	12	54	50	19	7	23	1.73
5576606--5576757	73	2.1	71	89	5	236	30	6	1	61	1.33
5576709--5576793	26	3.3	26	94	0	143	41	5	0	52	1.25
5580220--5580304	31	2.7	31	94	0	143	37	10	10	41	1.74
5580978--5581033	28	2.0	28	86	3	78	26	16	23	33	1.95
5582253--5582291	20	2.0	20	85	10	53	43	12	10	33	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5589725--5589825	18	5.8	17	87	3	103	31	11	10	45	1.76
5594331--5594743	206	2.0	207	96	3	771	32	25	17	24	1.97
5603614--5603649	18	1.9	19	88	5	56	19	5	11	63	1.46
5603662--5603691	2	15.5	2	93	6	53	53	0	0	46	1.00
5603957--5604006	20	2.5	21	71	15	52	50	6	4	40	1.46
5606234--5606264	14	2.2	14	94	0	53	67	0	0	32	0.91
5607379--5607404	3	8.7	3	100	0	52	65	0	0	34	0.93
5607534--5607873	82	4.3	81	79	5	322	23	15	22	38	1.92
5607879--5608324	89	5.1	89	79	7	457	29	20	16	33	1.95
5607885--5608324	173	2.5	172	82	4	494	29	20	16	33	1.94
5608323--5608556	89	2.7	87	83	2	263	29	21	17	31	1.97
5608393--5608556	86	1.9	87	87	1	240	27	23	17	31	1.97
5608561--5609344	62	13.0	62	82	8	825	33	16	23	27	1.96
5608564--5609344	119	6.5	123	81	7	847	33	16	23	27	1.96
5608564--5609224	243	2.7	245	84	6	824	32	16	23	27	1.96
5608561--5609226	305	2.2	304	86	5	916	32	16	23	27	1.96
5614994--5615041	13	3.8	13	77	5	62	35	18	16	29	1.93
5616545--5616823	141	2.0	141	95	4	510	26	12	22	38	1.89
5621172--5621232	21	2.8	21	80	9	61	63	1	3	31	1.20
5624076--5624150	39	1.9	39	83	0	96	34	24	18	22	1.96
5633648--5633962	157	2.0	157	100	0	630	36	10	28	24	1.88
5637330--5637399	36	2.0	35	83	10	90	31	14	25	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5638102--5638181	21	3.8	21	75	6	81	25	16	20	38	1.92
5638101--5638188	42	2.1	42	84	0	113	26	15	22	35	1.94
5638192--5638232	21	2.0	21	85	0	55	24	12	26	36	1.91
5639083--5639291	103	2.0	104	97	2	393	30	24	13	31	1.93
5654797--5654878	21	4.0	20	72	12	76	23	24	18	34	1.96
5654866--5654896	15	2.1	15	93	0	53	35	22	19	22	1.96
5654920--5655057	41	3.4	42	80	9	144	35	23	16	23	1.95
5654923--5655057	20	6.7	20	75	10	96	34	24	17	24	1.96
5655517--5655575	20	3.0	20	84	0	64	16	18	20	44	1.87
5655712--5655766	25	2.2	24	78	15	58	20	9	18	52	1.71
5656876--5656923	18	2.7	18	93	0	87	27	45	12	14	1.81
5657479--5657537	19	3.4	19	68	22	56	11	16	20	50	1.76
5657487--5657551	14	4.4	14	75	19	60	10	13	23	52	1.72
5657479--5657567	33	2.7	33	94	0	151	12	16	21	49	1.78
5657551--5657626	20	3.8	20	85	1	100	18	25	21	35	1.95
5657554--5657651	20	4.9	19	78	9	63	20	20	23	35	1.96
5658001--5658070	21	3.3	20	72	7	59	24	41	15	18	1.89
5657994--5658101	42	2.5	42	84	1	135	22	41	16	19	1.90
5659491--5659529	14	2.8	14	84	0	51	35	0	17	46	1.49
5659710--5659758	20	2.5	20	80	3	64	14	24	20	40	1.89
5660300--5660391	20	4.6	20	86	5	123	26	18	28	27	1.98
5660299--5660425	20	6.3	20	83	5	121	23	18	26	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5660324--5660454	41	3.2	41	79	3	113	22	18	26	32	1.97
5660463--5660515	21	2.5	22	72	6	56	35	16	24	22	1.95
5662962--5663013	27	1.9	27	88	0	77	32	3	13	50	1.60
5662962--5663020	27	2.2	27	84	0	73	33	3	13	49	1.59
5670185--5670231	23	2.1	23	84	4	60	40	2	2	55	1.24
5670278--5670308	16	1.9	16	93	0	53	45	3	0	51	1.17
5675383--5675419	19	1.9	19	89	10	58	18	10	18	51	1.75
5677664--5677752	42	2.1	42	91	0	142	38	1	6	53	1.35
5677722--5677754	15	2.3	15	89	5	50	36	0	3	60	1.12
5680317--5680363	22	2.1	23	88	4	69	38	25	12	23	1.90
5683466--5683879	181	2.3	182	88	0	605	42	14	16	26	1.86
5686109--5686173	21	3.1	21	90	0	94	41	9	30	18	1.82
5686207--5686272	33	2.0	33	90	0	105	28	0	48	22	1.51
5688065--5688113	19	2.6	19	96	0	89	32	2	10	55	1.45
5688226--5689570	400	3.4	400	93	2	2230	35	15	18	30	1.91
5688226--5689570	200	6.8	200	87	6	1951	35	15	18	30	1.91
5689070--5689570	179	2.7	179	88	7	689	35	14	18	31	1.91
5691067--5691154	6	14.7	6	78	0	86	38	7	35	18	1.80
5691080--5691175	6	16.5	6	76	10	74	36	7	35	20	1.81
5691067--5691172	24	4.4	24	82	0	122	37	7	34	19	1.80
5691067--5691154	12	7.3	12	85	0	122	38	7	35	18	1.80
5691080--5691176	12	7.8	12	81	11	97	36	7	35	21	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5692389--5692963	183	3.1	183	93	3	978	34	15	17	33	1.91
5695808--5695880	23	3.2	23	86	3	103	34	5	20	39	1.76
5699245--5699320	37	2.1	37	92	0	125	40	13	10	35	1.79
5701600--5701805	74	2.8	74	85	3	252	24	30	23	21	1.99
5707556--5707613	23	2.7	23	86	7	77	20	36	24	18	1.95
5707596--5707633	20	1.9	20	88	0	58	26	36	26	10	1.89
5710207--5710413	76	2.7	77	85	5	262	23	30	23	21	1.99
5711411--5711449	3	13.3	3	94	5	71	64	0	0	35	0.94
5715169--5715240	38	1.9	38	91	2	119	15	11	33	40	1.82
5715353--5715426	38	2.0	38	89	2	114	12	12	37	37	1.80
5716011--5716055	18	2.6	18	89	6	67	28	28	6	35	1.83
5716185--5716268	3	28.7	3	90	4	136	65	0	32	2	1.05
5716561--5716646	41	2.0	43	84	4	113	31	19	22	26	1.98
5716793--5716942	58	2.6	58	87	4	205	41	16	11	31	1.83
5730925--5731029	2	52.5	2	96	0	192	49	0	1	48	1.12
5731628--5731659	2	16.0	2	100	0	64	50	0	0	50	1.00
5734916--5735032	61	1.9	60	89	1	180	29	24	18	27	1.98
5739666--5739707	22	2.0	21	95	4	75	42	0	11	45	1.41
5739713--5739858	40	3.7	39	81	8	143	41	5	6	46	1.54
5739676--5739903	40	5.9	39	75	14	136	42	4	9	42	1.58
5739675--5739905	38	6.0	37	70	19	118	42	4	9	42	1.58
5739869--5740040	48	3.7	45	75	16	147	47	3	6	42	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5739870--5740044	70	2.5	67	79	13	187	47	3	6	42	1.47
5739870--5740050	22	7.9	21	72	18	105	47	3	6	42	1.46
5740095--5740139	3	15.0	3	82	17	58	33	0	0	66	0.92
5740098--5740147	24	2.2	23	83	13	68	32	0	0	68	0.90
5741427--5741481	5	10.4	5	81	18	67	25	0	0	74	0.82
5741427--5741481	22	2.5	22	97	2	103	25	0	0	74	0.82
5741427--5741478	17	3.2	16	81	10	61	25	0	0	75	0.81
5745238--5745283	24	1.9	24	86	0	65	36	17	13	32	1.88
5752524--5752569	21	2.2	21	84	0	56	30	13	19	36	1.90
5753683--5753724	22	2.0	21	95	4	75	42	0	11	45	1.41

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