genome.fa.s9643.2.7.7.80.10.50.1000.22.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: 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  22  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)
4638616--4638657	21	2.0	21	85	0	57	38	16	26	19	1.92
4643240--4643280	17	2.4	17	91	0	64	17	29	21	31	1.96
4652538--4652583	24	2.0	23	83	8	58	65	4	0	30	1.12
4653371--4653422	2	26.0	2	100	0	104	50	0	0	50	1.00
4661291--4661324	16	2.1	16	88	0	50	26	0	2	70	1.01
4666019--4666149	60	2.2	60	83	5	158	35	18	5	41	1.73
4666547--4666599	25	2.2	25	89	3	81	33	5	9	50	1.58
4666686--4666721	2	18.0	2	94	0	63	47	0	2	50	1.15
4668373--4668416	19	2.3	19	84	7	54	52	2	2	43	1.26
4671003--4671032	9	3.3	9	95	0	51	16	0	3	80	0.85
4680832--4680884	27	2.0	27	84	0	70	37	5	15	41	1.70
4681517--4681592	28	2.6	29	79	10	84	46	5	2	46	1.39
4688756--4688837	41	2.0	40	80	2	92	35	20	19	24	1.96
4689110--4689239	20	6.4	20	84	4	147	18	19	23	38	1.93
4689147--4689244	21	4.8	20	83	6	106	18	21	25	34	1.96
4694046--4694258	106	2.0	106	87	0	309	39	9	12	38	1.77
4694300--4694371	32	2.2	32	97	0	135	52	13	8	25	1.68
4697370--4697483	46	2.5	46	81	9	126	29	21	20	28	1.98
4700139--4700201	21	2.9	22	77	13	67	25	23	23	26	2.00
4704052--4704091	21	2.0	20	85	14	55	32	7	2	57	1.40
4706002--4706181	65	2.8	62	80	12	177	27	17	24	31	1.97
4706022--4706181	65	2.5	65	86	7	211	26	16	23	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4715864--4715917	2	27.0	2	100	0	108	50	0	0	50	1.00
4716915--4717066	31	4.8	31	77	2	142	49	6	1	42	1.40
4716924--4717072	63	2.4	62	79	4	163	48	6	2	41	1.43
4718587--4718629	22	2.0	22	90	0	68	44	18	16	20	1.87
4719300--4719329	13	2.2	14	94	5	53	46	23	0	30	1.52
4720324--4720375	2	26.0	2	100	0	104	50	0	0	50	1.00
4720716--4720753	20	1.9	20	89	10	60	21	34	31	13	1.91
4720774--4720815	21	2.0	21	86	9	59	35	28	11	23	1.91
4723195--4723231	16	2.2	18	85	9	51	18	18	0	62	1.34
4727157--4727195	20	2.0	20	90	10	62	23	33	30	12	1.92
4727216--4727257	21	2.0	22	86	9	61	33	28	14	23	1.94
4728197--4728241	2	22.5	2	100	0	90	51	0	0	48	1.00
4730894--4730962	2	33.5	2	84	11	86	52	2	1	43	1.25
4745204--4745254	22	2.3	22	86	0	75	19	41	15	23	1.90
4745618--4745671	20	2.7	19	80	8	63	14	14	22	48	1.81
4750664--4750688	3	8.3	3	100	0	50	0	36	0	64	0.94
4750863--4750916	24	2.2	24	86	0	72	40	20	18	20	1.91
4751871--4751961	20	4.5	20	76	13	78	30	13	24	31	1.93
4751871--4751963	41	2.3	40	81	5	98	30	12	24	32	1.93
4756055--4756109	25	2.2	25	100	0	110	52	36	3	7	1.47
4757160--4757229	19	3.7	19	98	0	131	30	27	21	21	1.98
4757303--4757479	21	8.3	21	77	14	161	19	19	23	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4757303--4757484	42	4.3	42	90	2	292	19	19	23	37	1.94
4757312--4757479	86	2.0	86	96	0	309	19	19	22	38	1.94
4758091--4758124	12	3.1	11	91	8	52	0	17	52	29	1.45
4758240--4758428	21	9.1	21	78	15	139	23	22	22	31	1.98
4758295--4758387	20	4.6	20	84	7	134	23	22	18	35	1.96
4758273--4758367	41	2.3	41	98	0	181	23	23	20	33	1.97
4758273--4758414	41	3.5	40	83	10	155	23	22	20	33	1.97
4758625--4758675	11	4.9	10	83	7	57	64	3	5	25	1.33
4759866--4759890	7	3.6	7	100	0	50	16	0	0	84	0.63
4759949--4759986	10	3.6	11	82	10	53	21	0	5	73	1.02
4761555--4761635	29	2.8	29	94	3	137	17	20	17	44	1.87
4761634--4761669	12	3.0	12	83	0	54	44	19	0	36	1.51
4762026--4762178	64	2.4	63	78	10	168	26	18	18	35	1.94
4768466--4768546	29	2.8	29	96	3	146	17	22	16	44	1.86
4768545--4768578	12	2.8	12	100	0	68	41	26	0	32	1.56
4768937--4769093	64	2.5	63	77	10	167	26	19	19	34	1.96
4771037--4771075	18	2.2	18	85	0	51	7	25	30	35	1.84
4780409--4780433	2	12.5	2	100	0	50	52	48	0	0	1.00
4780431--4780515	4	22.0	4	72	11	70	42	24	8	24	1.82
4780432--4780516	8	11.0	8	86	12	115	41	24	9	24	1.84
4784927--4784989	29	2.1	29	88	2	90	46	7	7	38	1.63
4784940--4785003	29	2.2	29	88	0	92	46	9	7	35	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4784829--4785248	140	3.0	138	85	5	557	41	11	11	35	1.78
4786943--4786979	6	6.2	6	90	0	56	35	43	16	5	1.71
4789211--4789237	2	13.5	2	100	0	54	51	0	0	48	1.00
4796426--4796462	19	1.9	19	94	0	65	51	0	2	45	1.15
4798324--4798400	20	3.7	20	74	17	59	28	23	16	31	1.96
4798324--4798381	20	2.7	20	81	10	62	27	20	18	32	1.97
4798369--4798502	63	2.1	62	81	10	148	26	23	19	31	1.98
4807430--4807472	20	2.2	20	86	0	59	30	11	20	37	1.89
4807704--4807758	27	2.0	27	100	0	110	29	25	23	21	1.99
4817448--4817500	18	2.8	20	74	23	51	20	24	7	47	1.76
4817748--4817975	111	2.1	111	94	0	393	46	10	7	36	1.65
4818033--4818086	18	3.0	17	81	10	63	66	1	0	31	1.02
4818274--4818399	50	2.5	50	78	0	135	20	26	35	16	1.94
4819542--4819591	23	2.1	24	85	10	68	48	6	0	46	1.27
4837393--4837461	31	2.2	32	84	7	97	20	43	20	15	1.88
4837401--4837470	13	5.0	13	77	16	68	18	42	20	18	1.89
4839961--4840051	24	3.8	24	83	2	121	28	16	17	37	1.92
4839961--4840051	47	1.9	48	88	2	139	28	16	17	37	1.92
4847783--4847820	20	1.9	20	94	0	67	23	28	15	31	1.96
4860246--4860298	21	2.5	21	84	0	70	22	22	16	37	1.94
4860516--4860577	22	3.0	22	75	18	78	27	38	14	19	1.90
4860893--4861006	40	3.2	32	73	17	93	14	17	23	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4860905--4861007	20	5.5	19	76	14	81	14	16	23	45	1.84
4860972--4861015	20	2.2	20	87	0	61	13	13	20	52	1.74
4862880--4862962	33	2.5	33	90	7	125	43	20	21	14	1.87
4862880--4862970	32	2.8	33	88	6	105	43	20	20	14	1.87
4862966--4863086	54	2.2	54	91	0	188	17	21	21	39	1.92
4862985--4863085	20	5.3	20	78	13	106	17	19	22	39	1.92
4863569--4863672	21	5.0	21	71	3	66	22	35	18	24	1.95
4863595--4863676	42	2.0	42	82	4	103	21	37	19	20	1.94
4865053--4865088	14	2.6	14	90	0	54	30	0	22	47	1.52
4865194--4865257	33	1.9	34	87	3	94	39	23	25	12	1.90
4865283--4865371	20	4.4	20	88	2	117	19	21	23	35	1.95
4867804--4867859	24	2.3	24	93	0	94	39	19	16	25	1.91
4867804--4867871	24	2.8	24	86	0	73	38	20	16	25	1.92
4868717--4868879	20	8.1	20	84	1	227	23	20	17	38	1.93
4868881--4868925	21	2.1	21	87	0	63	37	17	26	17	1.93
4872055--4872712	127	5.2	127	92	2	1061	22	23	21	32	1.98
4872795--4872820	2	13.0	2	100	0	52	50	0	0	50	1.00
4873134--4873234	34	3.0	34	86	0	157	38	2	4	53	1.38
4873758--4873827	21	3.3	20	90	5	95	20	24	35	20	1.96
4875628--4875709	32	2.6	32	78	7	87	56	1	0	42	1.07
4875902--4876033	60	2.2	60	85	6	169	27	29	25	18	1.98
4877013--4877060	23	2.1	23	88	0	69	35	12	18	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4877488--4877550	23	2.7	23	92	0	99	38	20	4	36	1.74
4877127--4877915	431	1.8	428	87	5	1112	40	12	8	39	1.73
4877951--4878037	39	2.2	39	95	0	156	17	13	20	48	1.81
4878293--4878329	18	2.1	18	89	0	56	51	10	5	32	1.60
4878718--4878768	25	2.0	25	92	0	84	39	19	7	33	1.81
4879034--4879105	23	3.2	23	86	2	92	38	22	4	34	1.73
4879531--4879593	23	2.7	23	87	0	90	38	19	4	38	1.73
4880018--4880080	23	2.7	23	92	0	99	38	20	4	36	1.74
4880507--4880566	23	2.6	23	91	0	93	38	20	5	36	1.74
4878871--4881883	486	6.2	490	97	1	5662	40	12	7	39	1.71

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