genome.fa.s7800.2.7.7.80.10.50.1000.22.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  22  of  23  ( 2671 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)
4410083--4410147	22	3.0	22	97	0	121	10	23	47	18	1.79
4410149--4410243	19	4.9	19	80	13	95	28	27	27	16	1.97
4410150--4410242	9	9.7	9	79	11	87	29	27	26	16	1.97
4410157--4410243	29	3.0	28	80	11	61	29	26	26	17	1.97
4417395--4417421	7	3.9	7	100	0	54	29	29	25	14	1.95
4417423--4417496	5	13.6	5	76	16	67	8	21	50	20	1.74
4417415--4417496	22	4.0	22	81	15	102	10	21	47	19	1.80
4417427--4417474	17	2.8	17	100	0	96	8	22	50	18	1.74
4417415--4417496	39	2.1	39	95	0	146	10	21	47	19	1.80
4417427--4417496	17	3.8	17	81	17	86	8	21	50	20	1.74
4417498--4417592	19	4.9	19	77	13	86	29	27	26	16	1.97
4417499--4417591	9	9.7	9	75	13	78	30	27	25	16	1.96
4417518--4417592	29	2.5	31	87	8	111	30	26	25	17	1.97
4417535--4417591	30	1.9	29	89	3	87	33	24	26	15	1.95
4419456--4419517	20	3.1	20	85	0	97	20	20	24	33	1.97
4419608--4419656	25	2.0	25	95	0	89	26	8	20	44	1.79
4420044--4420080	18	2.1	18	89	0	56	32	5	10	51	1.60
4420036--4420088	24	2.2	24	86	0	70	35	3	13	47	1.61
4420391--4420477	39	2.2	39	95	0	156	48	20	13	17	1.81
4421481--4421531	22	2.3	22	82	0	66	25	9	37	27	1.87
4421659--4421739	20	4.1	20	76	13	87	18	17	23	40	1.91
4421659--4421735	40	1.9	40	82	15	97	16	16	23	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4422885--4422915	16	1.9	16	93	0	53	22	19	19	38	1.93
4423771--4423832	27	2.3	28	86	5	83	48	24	6	20	1.73
4428707--4429645	105	8.9	105	93	0	1545	21	22	18	37	1.95
4430567--4430684	8	15.0	8	82	10	102	16	11	0	72	1.13
4430555--4430697	24	5.6	24	72	18	76	13	12	0	73	1.10
4430614--4430698	27	3.1	26	77	13	73	11	12	0	75	1.05
4434224--4434250	14	1.9	14	100	0	54	66	3	22	7	1.33
4439691--4439741	25	2.0	25	100	0	102	33	23	7	35	1.84
4444568--4444616	21	2.3	21	85	3	62	44	6	4	44	1.47
4444575--4444618	21	2.0	22	91	4	72	47	6	4	40	1.50
4448370--4448421	8	6.1	9	73	13	56	63	1	1	32	1.16
4448367--4448419	16	3.2	17	84	10	65	66	1	1	30	1.13
4448373--4448433	17	3.8	17	87	8	76	63	3	1	31	1.20
4448373--4448433	33	1.9	31	83	6	77	63	3	1	31	1.20
4449011--4449047	20	1.9	19	89	10	58	45	10	24	18	1.81
4449951--4449980	13	2.2	14	94	5	53	43	0	0	56	0.99
4453871--4453920	2	26.0	2	90	8	77	46	0	2	52	1.12
4453890--4453946	22	2.6	22	83	5	62	35	0	3	61	1.13
4461925--4461978	27	2.0	27	100	0	108	11	18	29	40	1.85
4462936--4462967	2	16.5	2	93	6	57	53	0	0	46	1.00
4463956--4463980	2	12.5	2	100	0	50	48	0	0	52	1.00
4467859--4467916	29	2.0	29	83	10	73	34	5	18	41	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4467946--4468008	34	1.9	33	84	9	85	53	1	1	42	1.19
4475438--4475495	30	2.0	29	84	15	77	48	10	5	36	1.60
4476647--4476813	38	4.4	38	88	8	261	11	10	38	39	1.76
4476647--4476813	75	2.2	75	98	0	325	11	10	38	39	1.76
4477610--4477655	18	2.7	18	93	6	78	28	32	6	32	1.83
4477910--4477941	16	1.9	17	93	6	57	46	0	0	53	1.00
4481181--4481217	17	2.2	17	90	0	56	45	16	5	32	1.70
4483689--4483727	16	2.4	16	100	0	78	12	46	10	30	1.75
4486766--4486816	24	2.2	24	82	10	61	15	5	3	74	1.16
4487739--4487781	16	2.7	16	100	0	86	69	6	18	4	1.29
4488249--4488286	15	2.5	15	91	0	58	28	31	10	28	1.90
4515382--4515413	16	2.0	16	100	0	64	50	18	0	31	1.48
4516536--4516564	15	1.9	15	100	0	58	48	10	0	41	1.37
4518085--4518114	13	2.3	13	94	0	51	70	0	0	30	0.88
4518256--4518315	15	4.2	14	73	10	59	80	0	3	16	0.85
4518281--4518305	9	2.8	9	100	0	50	72	0	8	20	1.10
4519963--4520636	124	5.5	124	87	4	870	25	15	25	33	1.95
4519985--4520636	243	2.7	245	84	5	874	26	15	24	33	1.95
4525546--4525626	5	15.8	5	72	23	53	79	3	1	16	0.95
4525544--4525626	36	2.3	35	85	8	105	79	3	1	15	0.93
4526823--4526862	3	12.7	3	86	5	53	62	2	0	35	1.09
4528192--4528236	19	2.3	20	81	14	58	42	42	0	15	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4533652--4533695	19	2.2	21	84	8	56	31	18	9	40	1.81
4534776--4534889	60	1.9	61	85	7	162	22	16	24	35	1.95
4534778--4534906	60	2.1	61	81	9	149	24	17	23	35	1.95
4542963--4542995	2	16.5	2	100	0	66	48	0	0	51	1.00
4543532--4543779	124	2.0	124	99	0	487	19	37	9	33	1.84
4544621--4544646	2	13.0	2	100	0	52	50	0	0	50	1.00
4546237--4546431	103	1.9	102	91	1	318	23	17	27	31	1.97
4548726--4548785	20	2.9	21	85	7	86	31	25	25	18	1.97
4548819--4548863	22	2.0	22	86	4	63	28	31	26	13	1.94
4549768--4549891	31	4.0	31	93	3	198	19	19	23	37	1.94
4552648--4552690	17	2.6	16	78	7	50	34	0	25	39	1.56
4553575--4553632	20	2.8	21	86	7	91	31	24	25	18	1.98
4553666--4553710	22	2.0	22	86	4	63	28	31	26	13	1.94
4554619--4554774	31	5.0	31	92	1	251	20	18	22	38	1.93
4555237--4555279	21	2.0	21	86	8	61	32	2	13	51	1.54
4560600--4560666	23	2.9	24	84	8	86	26	28	22	22	1.99
4561243--4561280	18	2.2	17	90	4	58	21	18	21	39	1.93
4570416--4570440	2	12.5	2	100	0	50	52	0	0	48	1.00
4573252--4573302	22	2.3	22	100	0	102	31	13	31	23	1.93
4574706--4574730	11	2.3	11	100	0	50	48	8	8	36	1.62
4575222--4575584	110	3.3	106	80	11	371	34	11	9	44	1.73
4576015--4576490	111	4.3	111	84	6	608	30	11	12	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4577955--4577992	19	2.0	19	85	10	51	39	2	2	55	1.28
4583377--4583428	18	2.9	18	88	0	77	23	32	25	19	1.97
4585230--4585278	19	2.5	21	72	27	54	0	16	28	55	1.42
4586609--4586646	2	19.0	2	94	0	67	47	0	0	52	1.00
4587095--4587159	5	13.4	5	79	9	64	75	4	1	18	1.05
4587852--4587987	37	3.8	35	84	5	157	28	14	13	42	1.84
4587886--4587986	34	2.9	35	89	8	152	26	14	13	44	1.83
4588529--4588985	105	4.3	106	89	2	634	22	18	25	33	1.96
4588519--4588985	211	2.2	213	86	4	649	22	18	25	33	1.96
4589589--4590042	65	6.7	65	74	12	313	38	11	19	30	1.88
4589721--4589983	36	7.4	36	77	9	254	39	13	19	27	1.89
4589670--4590042	138	2.7	138	84	0	478	38	12	19	29	1.88
4589757--4589941	102	1.8	102	85	2	264	40	14	17	28	1.88
4590405--4590440	18	2.0	18	88	0	54	41	33	5	19	1.75
4590806--4590860	22	2.5	22	93	0	92	23	10	25	40	1.87
4591511--4591582	7	9.3	7	74	18	54	1	15	5	77	1.01
4591534--4591585	15	3.5	15	77	15	54	1	13	3	80	0.93
4592729--4592767	8	5.0	8	84	6	53	58	12	17	10	1.61
4592729--4592767	15	2.5	15	87	4	51	58	12	17	10	1.61
4595259--4595318	5	12.4	5	77	10	54	75	5	1	18	1.07
4596014--4596149	37	3.8	36	82	8	161	30	13	13	41	1.84
4596048--4596148	34	2.9	35	89	8	152	28	13	13	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4598000--4598140	58	2.4	61	82	9	159	32	20	4	41	1.74
4598016--4598140	61	2.1	58	82	8	146	33	20	5	40	1.76
4598262--4598434	60	2.9	60	85	5	215	44	5	19	30	1.74
4598346--4598433	29	3.0	29	70	14	72	46	6	14	31	1.71
4602147--4602171	2	12.5	2	100	0	50	48	0	0	52	1.00
4602661--4602701	22	1.9	21	90	5	64	70	2	0	26	0.99
4603806--4603851	2	23.0	2	100	0	92	50	0	0	50	1.00
4604736--4604791	15	3.6	15	74	9	58	41	12	12	33	1.81
4604739--4604789	17	3.1	17	72	11	52	41	11	9	37	1.75
4604833--4604941	33	3.4	33	91	3	170	45	14	8	31	1.74

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23