genome.fa.s8527.2.7.7.80.10.50.1000.19.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  19  of  37  ( 4336 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)
4576598--4577361	381	2.0	380	97	0	1449	34	21	21	21	1.96
4580649--4580979	93	3.6	93	96	0	592	36	22	12	28	1.91
4580719--4580863	45	3.2	45	61	16	107	35	20	12	31	1.90
4583056--4583093	20	1.9	20	84	10	51	0	5	7	86	0.69
4583399--4583424	2	13.0	2	100	0	52	50	0	0	50	1.00
4589156--4589184	13	2.2	13	100	0	58	13	62	24	0	1.32
4589988--4590065	3	26.0	3	87	5	104	61	1	0	37	1.04
4602669--4602693	2	12.5	2	100	0	50	48	0	0	52	1.00
4603450--4603503	29	1.9	28	82	14	67	46	3	5	44	1.44
4609205--4609284	38	2.1	38	92	0	133	26	11	33	28	1.91
4609234--4609370	54	2.5	54	92	0	229	26	9	32	32	1.88
4615319--4615430	30	3.8	29	81	7	118	35	8	1	53	1.43
4615411--4615480	25	2.6	27	77	13	81	38	4	1	55	1.28
4618631--4618669	2	20.5	2	89	10	64	51	0	0	48	1.00
4624586--4624633	14	3.4	14	77	8	53	60	4	0	35	1.16
4624584--4624644	29	2.1	28	82	8	70	57	4	0	37	1.20
4624810--4624868	24	2.5	23	84	10	75	18	0	27	54	1.44
4626343--4626413	31	2.3	31	100	0	142	39	7	8	45	1.62
4632768--4632815	10	4.4	10	76	19	51	62	18	8	10	1.52
4632768--4632848	23	3.5	23	84	1	99	60	18	8	12	1.57
4635050--4635094	16	2.8	16	100	0	90	6	13	24	55	1.62
4642149--4642190	22	2.0	21	86	13	59	28	0	7	64	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4648357--4648951	194	3.0	199	82	7	643	31	12	11	45	1.77
4650601--4650789	104	1.8	103	94	3	335	30	15	12	41	1.83
4653498--4654239	376	2.0	369	90	2	1004	32	13	14	39	1.85
4654276--4656252	710	2.8	701	82	6	2289	32	12	13	41	1.82
4666354--4666504	20	7.6	20	100	0	302	39	19	20	19	1.92
4666694--4666766	22	3.3	22	82	5	94	24	41	15	19	1.89
4667103--4667170	20	3.5	20	85	2	84	16	19	23	41	1.90
4667103--4667180	20	3.9	19	78	5	66	16	17	21	43	1.88
4669044--4669124	33	2.4	33	81	2	90	46	22	18	12	1.82
4669111--4669179	20	3.5	20	86	4	86	37	23	17	21	1.94
4669044--4669146	34	3.1	34	73	8	102	45	21	18	14	1.85
4669224--4669310	20	4.3	20	84	5	95	21	17	21	39	1.93
4669224--4669310	40	2.2	40	85	0	111	21	17	21	39	1.93
4671283--4671318	14	2.6	14	90	0	54	30	0	22	47	1.52
4671435--4671519	33	2.5	33	88	1	116	45	16	22	15	1.84
4671529--4671596	20	3.8	19	75	20	83	14	22	17	45	1.85
4671536--4671629	33	2.8	34	88	3	136	13	23	20	42	1.88
4671601--4671694	20	4.7	20	88	2	136	19	22	23	35	1.96
4674074--4674127	24	2.2	24	86	0	72	40	16	18	24	1.90
4674969--4675015	20	2.3	20	92	0	76	21	19	27	31	1.97
4674999--4675095	20	4.8	20	79	9	108	21	21	20	36	1.96
4675092--4675137	21	2.2	21	92	0	74	39	17	26	17	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4676074--4676123	16	3.2	16	75	11	50	60	4	8	28	1.43
4676223--4676274	17	3.0	17	78	18	54	48	1	1	48	1.24
4676229--4676298	18	3.9	17	75	18	54	45	5	4	44	1.47
4676288--4676525	28	8.9	26	71	16	123	46	5	6	42	1.51
4676288--4676526	41	5.9	40	70	17	131	46	5	6	41	1.51
4676288--4676526	13	17.8	13	70	17	143	46	5	6	41	1.51
4676284--4676587	146	2.1	148	94	2	531	46	4	6	42	1.49
4676471--4676551	26	3.2	25	81	15	78	50	6	4	38	1.49
4676572--4676698	2	66.0	2	67	20	58	48	3	3	44	1.37
4676497--4676640	74	1.9	75	90	4	229	48	3	4	43	1.41
4676907--4676960	20	2.4	24	82	14	71	44	5	7	42	1.55
4676907--4676973	26	2.8	24	74	12	66	46	7	5	40	1.57
4684830--4685170	41	8.3	41	79	11	269	33	20	21	25	1.97
4684826--4685110	103	2.8	103	95	1	500	33	20	21	24	1.97
4684810--4685175	62	5.9	63	85	8	329	32	20	21	25	1.98
4684810--4685131	21	15.6	21	75	17	232	32	21	21	24	1.98
4685139--4685213	21	3.6	21	89	8	93	26	21	22	29	1.99
4685201--4685274	20	3.7	20	79	16	98	22	21	18	36	1.95
4685180--4685287	41	2.6	41	89	5	182	23	22	21	33	1.97
4685902--4685933	6	5.5	6	96	3	57	0	15	53	31	1.43
4686011--4686192	42	4.3	42	90	0	265	35	21	19	23	1.96
4686477--4686543	31	2.2	32	86	7	95	43	8	14	32	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4687185--4687291	55	1.9	55	84	0	142	36	30	17	14	1.91
4689626--4689667	13	3.2	13	83	10	59	19	21	42	16	1.89
4695595--4695676	23	3.5	22	78	18	69	50	2	0	47	1.14
4695620--4695676	22	2.5	22	85	8	69	52	1	0	45	1.11
4696827--4696868	22	1.9	22	85	0	57	57	9	0	33	1.31
4698805--4698863	16	3.7	16	95	0	109	57	22	11	8	1.61
4699614--4699669	14	4.3	14	76	17	66	53	23	12	10	1.69
4699594--4699668	24	3.1	24	86	3	98	56	20	10	13	1.66
4704391--4704423	2	16.5	2	100	0	66	51	0	0	48	1.00
4706181--4706232	23	2.3	23	96	0	95	11	17	15	55	1.68
4711457--4711524	27	2.6	27	90	4	104	32	8	16	42	1.79
4715201--4715295	27	3.6	27	92	2	158	31	12	15	40	1.85
4722418--4722444	14	1.9	14	100	0	54	51	14	0	33	1.43
4722666--4722722	29	2.0	29	89	0	87	52	19	7	21	1.69
4722787--4722840	29	1.9	27	92	3	81	53	11	12	22	1.70
4723193--4723240	24	2.0	24	100	0	96	33	8	29	29	1.86
4723458--4723497	21	1.9	21	89	0	62	42	15	5	37	1.68
4724298--4724332	11	3.2	11	91	0	61	51	0	20	28	1.47
4727236--4727300	27	2.4	27	92	2	105	29	7	27	35	1.85
4736219--4736256	2	19.0	2	100	0	76	50	0	0	50	1.00
4740857--4740903	21	2.2	22	81	11	53	6	46	8	38	1.60
4748074--4748101	2	14.0	2	100	0	56	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4751608--4751649	18	2.3	18	84	12	50	71	4	7	16	1.26
4754051--4754340	42	7.0	42	83	5	351	14	48	14	22	1.80
4756916--4756974	28	2.1	27	84	12	75	54	13	1	30	1.49
4757798--4757886	30	3.0	30	91	1	135	31	26	21	20	1.98
4757882--4757982	31	3.2	31	80	8	132	33	18	18	28	1.95
4758862--4758917	29	1.9	29	82	7	69	44	23	1	30	1.63
4759305--4759349	21	2.1	21	87	0	63	15	24	28	31	1.96
4760611--4760679	2	34.5	2	100	0	138	49	0	0	50	1.00
4772946--4772976	14	2.1	15	94	5	55	32	6	12	48	1.67
4772946--4772985	14	2.9	14	84	0	53	35	10	12	42	1.76
4777792--4777868	33	2.5	30	78	17	77	40	0	3	55	1.18
4777922--4777973	19	2.7	20	77	11	63	48	1	0	50	1.12
4777931--4777993	27	2.3	26	81	13	65	49	1	0	49	1.10
4778280--4778384	42	2.5	42	85	3	140	51	15	12	20	1.75
4780348--4780401	28	1.9	28	84	0	72	38	16	16	27	1.90
4781785--4781846	31	2.2	28	83	13	74	29	29	24	17	1.97
4782354--4782657	150	2.0	150	95	0	547	31	25	24	18	1.98
4787934--4788000	28	2.4	28	92	5	109	26	7	25	40	1.82
4789448--4789541	43	2.2	43	86	0	125	42	19	8	29	1.80
4805168--4805203	18	1.9	19	88	5	56	30	0	5	63	1.17
4813392--4813588	100	2.0	98	83	6	245	32	15	7	44	1.74
4826183--4826225	18	2.4	18	80	7	52	30	39	9	20	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4830263--4830435	60	2.9	60	78	6	188	45	5	13	35	1.66
4831981--4832050	12	5.8	12	76	6	70	51	18	14	15	1.77
4831981--4832050	24	2.9	24	84	0	95	51	18	14	15	1.77
4831980--4832087	24	4.5	24	75	4	85	47	17	14	20	1.83
4834583--4834659	18	4.3	18	94	0	136	12	20	49	16	1.79
4834596--4834647	5	9.2	5	77	22	50	9	21	51	17	1.73
4834577--4834642	13	5.3	13	76	20	54	15	21	46	16	1.83
4847067--4847406	111	3.0	110	75	6	342	29	33	14	23	1.94
4854985--4855036	21	2.5	21	81	3	61	38	19	25	17	1.93
4855022--4855099	41	1.9	41	86	0	111	39	21	16	21	1.92

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