genome.fa.s1838.2.7.7.80.10.50.1000.17.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: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3924084

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

This is table  17  of  18  ( 2134 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)
3492038--3492088	19	2.7	19	77	17	61	17	25	29	27	1.98
3493920--3494008	40	2.3	39	82	2	106	22	16	22	38	1.93
3495564--3495595	13	2.5	13	100	0	64	15	31	9	43	1.78
3497130--3497179	18	2.7	18	78	3	55	46	12	0	42	1.41
3497204--3497308	30	3.5	29	79	11	95	40	4	0	55	1.21
3497393--3497451	24	2.5	24	88	2	84	54	0	6	38	1.27
3497383--3497522	30	4.9	29	74	12	119	50	0	10	39	1.36
3497462--3497532	36	1.9	38	81	16	87	49	0	8	42	1.33
3499679--3499712	9	3.9	9	84	7	52	55	0	0	44	0.99
3500164--3500210	23	2.0	23	87	0	67	65	0	2	31	1.04
3500601--3500652	23	2.2	24	80	16	65	25	44	11	19	1.84
3501383--3501441	3	19.7	3	82	6	75	61	0	0	38	0.96
3501600--3501693	45	2.1	45	100	0	188	34	19	24	22	1.97
3501664--3501722	29	2.0	29	100	0	118	35	20	23	20	1.96
3501619--3501767	74	2.0	74	100	0	298	34	20	24	21	1.97
3501693--3502014	45	7.2	45	97	0	590	34	18	23	23	1.97
3501794--3501865	20	3.3	20	66	23	56	31	18	27	22	1.97
3502713--3502776	22	2.9	22	92	0	101	34	14	15	35	1.88
3510831--3510864	9	3.9	9	84	7	52	55	0	0	44	0.99
3511294--3511365	23	3.0	23	78	8	74	62	0	4	33	1.14
3511748--3511831	23	3.9	22	81	6	93	17	38	21	22	1.94
3512262--3512318	29	2.0	29	89	0	87	19	22	43	14	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3512540--3512597	3	18.7	3	82	10	64	60	1	0	37	1.07
3512845--3512907	31	2.0	31	90	0	99	36	14	25	23	1.93
3513345--3513384	21	1.9	21	85	10	55	47	12	12	27	1.77
3515038--3515080	16	2.7	16	92	0	68	20	9	23	46	1.79
3521860--3521921	23	2.9	21	85	7	81	20	35	25	17	1.95
3528909--3528939	14	2.1	15	94	5	55	70	9	0	19	1.14
3538771--3538798	14	2.0	14	100	0	56	35	14	21	28	1.92
3539218--3539287	33	2.1	34	91	2	115	47	2	15	34	1.61
3544866--3545004	31	4.7	30	67	18	78	56	0	4	38	1.24
3544859--3544934	35	2.1	36	83	7	93	55	0	5	39	1.23
3544947--3545039	32	2.9	31	75	12	82	59	1	3	36	1.21
3546356--3546408	15	3.5	15	86	0	70	7	11	67	13	1.40
3546853--3546903	23	2.1	23	82	7	57	54	13	13	17	1.70
3549830--3549877	21	2.3	21	92	0	78	50	29	4	16	1.64
3549928--3549973	3	15.7	3	82	13	60	30	4	0	65	1.12
3550115--3550181	28	2.4	28	92	2	107	25	34	22	17	1.96
3551049--3551073	11	2.3	11	100	0	50	16	8	8	68	1.38
3551265--3551670	30	13.6	30	72	11	239	19	12	8	59	1.59
3551265--3551664	119	3.3	118	74	7	344	19	13	8	59	1.60
3551266--3551670	89	4.6	88	75	12	271	19	12	8	59	1.59
3557037--3557138	38	2.7	38	83	4	109	32	17	14	35	1.91
3557457--3557518	30	2.1	30	85	5	83	27	14	12	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3557699--3557868	66	2.6	66	83	1	209	25	20	13	40	1.89
3557964--3558300	133	2.5	133	85	2	462	26	29	17	26	1.97
3558225--3558334	43	2.7	40	75	4	112	24	30	19	26	1.98
3558502--3558548	3	16.3	3	83	16	64	29	2	0	68	1.02
3559131--3559164	6	5.8	6	93	6	61	82	0	17	0	0.67
3559131--3559162	11	2.8	11	95	4	55	84	0	15	0	0.63
3559131--3559164	17	2.0	17	100	0	68	82	0	17	0	0.67
3559964--3560361	30	13.4	30	75	11	293	17	13	10	58	1.62
3560015--3560322	119	2.6	117	76	7	298	17	12	10	59	1.61
3560074--3560361	88	3.2	88	79	8	287	16	12	10	60	1.58
3564763--3564913	41	3.7	41	76	4	153	28	17	20	33	1.95
3564739--3564913	82	2.1	82	90	0	269	31	17	19	31	1.95
3564739--3564963	82	2.7	82	84	2	238	33	18	16	31	1.93
3568280--3568339	21	2.9	21	74	0	57	53	26	0	20	1.46
3568307--3568381	21	3.5	20	71	15	53	48	25	2	24	1.64
3568420--3568462	21	2.0	21	86	8	61	39	0	9	51	1.34
3568548--3568598	21	2.5	21	83	3	59	47	25	1	25	1.63
3571201--3571241	3	13.7	3	89	0	64	39	0	0	60	0.96
3583582--3584107	45	11.7	45	92	1	849	23	23	19	33	1.97
3584263--3584319	3	19.0	3	85	0	78	40	0	0	59	0.97
3584265--3584316	18	2.9	18	100	0	104	42	0	0	57	0.98
3584741--3584767	13	2.1	13	100	0	54	51	14	33	0	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3585386--3585470	24	3.4	23	70	13	62	37	1	2	58	1.18
3585548--3585599	2	26.0	2	100	0	104	50	0	0	50	1.00
3588271--3588326	20	2.8	20	86	0	76	33	14	21	30	1.93
3598436--3598575	41	3.4	40	87	3	190	24	13	20	42	1.88
3608126--3608213	3	29.3	3	95	0	149	67	0	3	29	1.07
3609720--3609798	31	2.5	31	87	4	106	35	16	16	31	1.91
3614960--3615024	12	5.4	12	74	20	64	10	13	20	55	1.68
3614932--3615026	24	4.0	24	78	10	97	16	13	18	50	1.78
3614935--3615026	48	1.9	48	84	4	123	16	14	18	51	1.77
3619650--3619720	24	2.9	25	81	6	92	15	9	18	56	1.66
3619677--3619718	12	3.5	13	81	15	54	14	11	16	57	1.66
3623886--3623928	2	21.0	2	90	4	68	46	2	2	48	1.27
3625029--3625122	47	2.0	47	93	4	163	32	17	4	45	1.67
3625033--3625137	47	2.2	47	88	6	151	34	17	2	45	1.63
3626202--3626271	28	2.4	31	76	9	74	30	21	8	40	1.83
3629953--3629988	2	18.0	2	100	0	72	50	0	0	50	1.00
3629988--3630049	2	31.0	2	96	0	115	1	0	48	50	1.10
3631412--3631539	57	2.2	57	87	5	179	38	5	17	39	1.73
3631610--3631660	23	2.2	23	89	0	75	17	29	23	29	1.97
3631657--3631710	24	2.2	24	83	0	63	24	22	20	33	1.97
3634075--3634119	21	2.2	20	84	4	54	40	24	2	33	1.68
3634176--3634213	20	1.9	20	84	10	51	31	5	0	63	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3635680--3635716	19	1.9	19	94	0	65	35	21	16	27	1.94
3636742--3637178	219	2.0	219	94	0	777	25	17	19	38	1.93
3640294--3640333	21	1.9	21	85	10	55	15	27	27	30	1.96
3644348--3644389	6	7.2	6	86	5	59	33	0	0	66	0.92
3645126--3645268	46	3.0	46	90	6	205	25	35	4	34	1.75
3658621--3658680	19	3.2	18	75	13	59	41	5	18	35	1.72
3658722--3658751	6	5.0	6	100	0	60	33	16	0	50	1.46
3658722--3658760	18	2.2	18	86	9	53	35	15	0	48	1.45
3661078--3661303	117	1.9	116	81	5	267	34	14	22	28	1.93
3666524--3666580	27	2.1	27	83	6	71	14	17	0	68	1.21
3669338--3669383	20	2.3	20	100	0	92	19	19	30	30	1.97
3670920--3670997	31	2.5	31	95	2	138	7	19	0	73	1.07
3670926--3671001	8	9.8	8	70	5	57	5	18	0	76	0.97
3675612--3675658	14	3.6	13	81	16	53	61	0	2	36	1.08
3675625--3675653	14	2.1	14	100	0	58	65	0	0	34	0.93
3677543--3677895	139	2.5	139	90	0	528	24	20	16	37	1.94
3678840--3678940	42	2.4	41	76	11	98	32	21	18	26	1.97
3678430--3678972	275	2.0	274	90	2	849	35	20	15	28	1.93
3678995--3679351	54	6.6	53	81	5	344	41	16	9	32	1.81
3678995--3679248	105	2.4	108	82	4	336	41	17	9	31	1.81
3678993--3679351	55	6.7	54	80	8	333	41	16	9	32	1.81
3681353--3681382	11	2.7	11	94	0	51	0	30	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3681364--3681444	17	5.0	17	72	22	75	1	20	2	75	0.99
3681378--3681474	30	3.3	29	80	10	99	3	21	2	73	1.08
3681347--3681452	10	9.9	11	66	22	57	0	22	1	74	0.97
3687948--3688009	23	2.9	21	85	7	81	20	35	25	17	1.95
3687949--3688029	21	3.8	21	77	7	65	24	35	23	16	1.94
3696310--3696352	20	2.2	20	86	0	59	34	20	13	30	1.92
3703854--3703899	3	15.0	3	86	4	65	63	0	2	34	1.07
3713831--3713982	73	2.1	73	95	1	270	45	19	10	25	1.82
3719427--3719461	18	1.9	18	88	0	52	28	17	0	54	1.43
3720613--3720686	5	13.0	5	74	23	58	10	17	52	18	1.73

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