genome.fa.s9001.2.7.7.80.10.50.1000.22.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: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4740655

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  22  of  24  ( 2777 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)
4384203--4384274	20	3.7	18	74	17	63	27	23	12	36	1.91
4395492--4395540	2	24.5	2	95	0	89	48	2	48	0	1.12
4395755--4395862	33	3.3	33	98	0	207	25	12	25	37	1.90
4397493--4397706	105	2.1	103	91	2	349	51	16	9	21	1.73
4399805--4399857	20	2.6	20	87	3	70	35	24	15	24	1.94
4402547--4403253	217	3.3	215	92	2	1175	51	8	11	28	1.67
4403334--4403568	2	115.0	2	81	9	278	47	1	3	47	1.29
4403646--4403714	29	2.4	30	80	11	81	52	0	7	40	1.29
4403619--4403688	20	3.3	20	70	18	61	51	1	5	41	1.34
4403726--4403750	2	12.5	2	100	0	50	52	0	0	48	1.00
4403745--4403887	20	7.7	18	66	25	68	41	6	6	44	1.56
4403815--4403887	38	1.9	38	94	5	130	42	8	6	42	1.61
4403985--4404055	27	2.6	26	82	13	72	40	8	2	47	1.48
4404045--4404086	9	4.4	9	78	21	50	47	7	0	45	1.30
4404045--4404113	34	2.0	36	85	5	97	46	7	2	43	1.46
4404176--4404459	51	5.4	51	80	11	290	45	6	5	42	1.53
4403726--4404375	18	37.5	17	65	20	117	44	6	5	43	1.52
4404247--4404496	33	7.7	33	78	13	250	43	7	6	42	1.57
4404248--4404375	69	1.9	68	91	4	213	45	6	4	43	1.50
4403964--4404375	2	197.5	2	63	22	77	46	6	3	43	1.47
4404384--4404432	25	2.0	25	87	0	71	42	8	8	40	1.64
4404312--4404493	91	2.0	94	90	5	291	42	7	7	42	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4404553--4404682	61	2.1	61	87	2	181	47	6	11	33	1.66
4404896--4405249	122	3.1	110	79	12	388	29	27	6	36	1.83
4405387--4405451	30	2.2	30	91	0	103	43	35	1	20	1.61
4405411--4405469	24	2.5	24	80	0	64	40	40	5	13	1.67
4405691--4405720	2	15.0	2	100	0	60	50	0	0	50	1.00
4405720--4406148	31	14.3	31	85	8	566	23	4	24	48	1.68
4405743--4405793	22	2.3	22	86	0	66	19	5	23	50	1.69
4407115--4407183	34	2.0	34	97	0	129	26	10	18	44	1.81
4408528--4408588	20	3.0	20	83	4	70	14	9	18	57	1.64
4409475--4409515	17	2.4	17	100	0	82	48	7	0	43	1.30
4412404--4412452	15	3.5	15	67	16	50	59	24	4	12	1.50
4412384--4412447	27	2.4	27	100	0	128	56	26	6	10	1.57
4413971--4414158	70	2.7	68	80	9	202	43	2	5	48	1.39
4414004--4414121	32	3.5	31	71	21	96	40	2	6	50	1.43
4414004--4414143	34	4.2	31	72	14	109	44	2	5	47	1.38
4415398--4415450	17	3.1	17	78	5	63	20	7	0	71	1.10
4420326--4421121	84	9.6	84	82	5	827	29	26	20	23	1.99
4420326--4421125	168	4.8	165	85	2	1007	29	25	20	24	1.99
4421129--4421287	36	4.4	36	87	4	205	26	22	15	35	1.93
4421129--4421287	72	2.2	72	89	0	237	26	22	15	35	1.93
4421274--4421386	33	3.4	33	90	0	172	40	19	7	31	1.80
4421383--4421563	85	2.1	84	80	4	202	32	25	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4421948--4422121	36	4.9	36	81	13	209	44	4	7	43	1.51
4421950--4422239	34	8.5	35	74	19	195	43	3	6	46	1.46
4423319--4423360	2	22.0	2	90	9	70	50	0	0	50	1.00
4425472--4425496	1	25.0	1	100	0	50	0	0	100	0	0.00
4425585--4425615	2	15.5	2	93	0	53	54	0	0	45	0.99
4425811--4425914	40	2.7	38	83	5	145	39	10	8	41	1.70
4425811--4425935	38	3.2	38	76	10	119	40	11	7	40	1.68
4426483--4426516	17	2.0	17	88	0	50	26	0	11	61	1.30
4426729--4426775	20	2.1	21	85	14	60	59	12	8	19	1.58
4426924--4426957	12	2.8	12	100	0	68	29	35	17	17	1.93
4428997--4429070	8	9.4	8	72	26	52	62	0	1	36	1.04
4428994--4429070	16	4.9	16	75	20	81	62	0	1	36	1.04
4429067--4429114	26	2.0	23	84	12	60	52	2	2	43	1.24
4446069--4446117	24	2.1	23	84	3	62	51	0	4	44	1.20
4457234--4457276	18	2.4	18	96	0	77	34	27	0	37	1.57
4465568--4465624	29	1.9	30	85	3	80	43	7	15	33	1.74
4465622--4465688	30	2.2	30	82	10	75	38	7	17	35	1.78
4468218--4468278	19	3.3	18	77	11	61	42	4	16	36	1.70
4474361--4474578	64	3.4	64	79	6	203	33	20	19	26	1.96
4475235--4475331	31	3.1	31	98	0	185	18	17	22	41	1.90
4478194--4478257	21	3.1	21	72	4	67	18	18	25	37	1.94
4478267--4478310	19	2.3	19	96	0	79	18	18	18	45	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4478246--4478418	64	2.8	60	86	8	249	21	16	21	41	1.90
4478267--4478418	21	7.4	20	78	5	121	21	15	20	42	1.89
4478511--4478544	6	5.7	6	100	0	68	32	50	17	0	1.47
4479158--4479247	22	4.2	22	74	8	96	40	24	16	18	1.91
4479176--4479266	41	2.2	41	86	5	121	41	23	17	17	1.90
4479239--4479290	20	2.6	20	100	0	104	42	23	25	9	1.84
4479239--4479319	20	4.0	21	85	1	76	39	23	19	17	1.92
4479945--4480118	91	1.9	90	80	10	203	45	9	10	34	1.70
4481758--4481797	20	2.0	20	85	0	53	65	0	5	30	1.14
4485090--4485387	72	4.1	71	89	4	427	40	12	13	34	1.81
4485084--4485388	143	2.1	146	86	6	449	41	11	12	34	1.80
4485292--4485486	100	2.0	97	85	7	259	44	9	14	31	1.77
4485390--4486092	74	9.6	74	80	3	661	43	11	12	33	1.78
4485390--4486093	220	3.2	219	81	4	801	43	11	12	32	1.79
4485390--4486093	73	9.6	73	80	5	573	43	11	12	32	1.79
4487476--4487522	20	2.3	20	89	7	69	29	0	2	68	1.02
4487700--4487730	14	2.2	14	94	0	53	32	0	6	61	1.21
4490496--4490558	32	2.0	32	93	0	108	22	4	15	57	1.57
4496152--4496196	20	2.2	21	92	4	74	51	2	2	44	1.26
4496193--4496232	20	2.0	20	90	4	64	22	0	15	62	1.32
4497972--4498006	12	2.8	13	86	8	54	45	8	5	40	1.58
4498090--4498146	19	3.0	19	82	7	71	38	3	5	52	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4499967--4500010	20	2.2	20	92	4	72	56	27	0	15	1.40
4510123--4510197	29	2.6	29	95	2	134	18	17	17	46	1.84
4510202--4510236	12	2.9	12	100	0	70	40	25	0	34	1.56
4511724--4511876	76	2.0	76	100	0	306	24	9	18	47	1.77
4511850--4511924	21	3.7	21	75	7	66	20	16	10	53	1.72
4511944--4512005	28	2.2	29	94	2	108	30	16	6	46	1.72
4514294--4514354	22	2.8	22	76	14	63	77	3	16	3	1.04
4514308--4514343	14	2.6	14	91	4	56	75	2	16	5	1.12
4515399--4515458	21	3.0	20	66	22	54	43	13	16	26	1.85
4515537--4515869	115	2.9	113	84	3	398	41	18	19	21	1.90
4521547--4521585	20	2.0	20	94	0	69	35	20	10	33	1.86
4521553--4521590	10	3.8	10	80	13	51	34	18	10	36	1.85
4530638--4530679	20	2.1	20	90	0	66	40	21	4	33	1.74
4532187--4532237	22	2.3	22	100	0	102	43	21	3	31	1.71
4533432--4533472	20	2.0	21	85	9	57	34	0	0	65	0.93
4534156--4534267	51	2.2	50	81	7	127	58	5	3	33	1.38
4534432--4534462	11	2.8	11	90	0	53	87	0	12	0	0.55
4536117--4536280	80	2.0	80	85	2	222	38	7	7	46	1.61
4536146--4536474	80	4.1	79	78	6	304	36	7	11	44	1.69
4536129--4536471	81	4.3	81	78	7	270	35	8	11	44	1.70
4537119--4537174	25	2.4	22	78	16	67	57	10	3	28	1.49
4537125--4537174	25	2.0	25	96	0	91	60	10	2	28	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4542783--4542909	64	2.0	64	96	0	236	37	14	14	33	1.87
4551160--4551200	21	1.9	22	85	5	57	43	4	0	51	1.23
4551162--4551223	19	3.2	19	73	8	61	38	4	0	56	1.21
4552743--4552772	2	15.0	2	100	0	60	50	0	0	50	1.00
4553432--4553485	22	2.4	23	71	3	56	51	0	1	46	1.11
4556119--4556156	15	2.5	15	91	0	58	57	0	7	34	1.28
4556594--4556716	31	3.8	31	84	8	140	48	8	12	30	1.69
4556650--4556703	17	3.4	17	71	23	62	48	5	12	33	1.65
4556594--4556716	62	1.9	65	85	9	173	48	8	12	30	1.69
4556924--4556956	16	2.1	16	100	0	66	36	12	18	33	1.88

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