genome.fa.s7800.2.7.7.80.10.50.1000.19.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: 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  19  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)
3660008--3660343	60	5.5	60	73	7	246	19	22	18	38	1.93
3660010--3660237	83	2.8	83	92	2	372	21	24	16	37	1.93
3660295--3660345	19	2.6	20	90	3	77	15	17	23	43	1.88
3661806--3661924	59	2.0	60	95	1	213	31	10	4	53	1.53
3664363--3664391	2	14.5	2	100	0	58	51	0	0	48	1.00
3668806--3668882	20	3.8	21	71	11	61	27	24	12	35	1.92
3668914--3668963	26	1.9	26	87	0	73	34	18	12	36	1.87
3668895--3668937	19	2.2	20	87	4	61	27	20	11	39	1.88
3669058--3669130	22	3.3	22	88	0	101	17	43	19	19	1.88
3669524--3669561	20	1.9	19	89	5	58	18	10	18	52	1.73
3669529--3669568	20	2.0	20	85	0	53	20	12	20	47	1.81
3671038--3671191	42	3.7	42	89	0	200	24	40	13	20	1.89
3671305--3671439	21	6.4	21	73	8	114	20	11	34	33	1.89
3671723--3671853	21	6.3	21	77	7	97	22	35	15	26	1.93
3671814--3671860	21	2.2	21	84	0	58	23	38	10	27	1.88
3674041--3674145	37	2.8	37	88	0	156	40	15	15	29	1.88
3674626--3674663	20	1.9	20	88	0	58	26	7	2	63	1.35
3680715--3681778	106	10.0	106	91	0	1653	34	24	17	23	1.96
3682510--3682613	37	2.8	37	91	0	163	40	13	15	30	1.86
3683109--3683146	20	1.9	20	88	0	58	26	7	2	63	1.35
3683129--3683175	20	2.6	17	76	20	51	17	10	0	72	1.12
3686031--3686094	20	3.2	20	100	0	128	29	10	25	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3692960--3693003	19	2.2	20	88	11	65	6	13	11	68	1.39
3714600--3714663	3	21.3	3	100	0	128	32	0	0	67	0.91
3715996--3716039	20	2.2	20	88	8	63	72	0	0	27	0.85
3717899--3717944	16	2.8	17	83	6	67	54	0	0	45	0.99
3717909--3717960	16	3.2	16	81	8	61	50	1	0	48	1.12
3726486--3726546	26	2.4	25	82	12	72	68	3	8	19	1.29
3732633--3732692	30	2.0	29	83	3	75	48	3	0	48	1.18
3733601--3733656	20	2.8	21	70	8	53	39	17	14	28	1.89
3734860--3734885	5	5.2	5	100	0	52	38	0	0	61	0.96
3740523--3740868	174	2.0	172	98	1	674	40	11	10	36	1.77
3741115--3741149	16	2.2	16	100	0	70	51	20	0	28	1.47
3742931--3742957	6	4.5	6	100	0	54	37	14	33	14	1.88
3743943--3744023	35	2.3	35	84	0	117	35	11	34	18	1.86
3751810--3752039	43	5.4	42	77	12	202	24	14	6	53	1.64
3751807--3752019	86	2.5	86	81	6	229	24	15	7	53	1.66
3751904--3752039	41	3.2	42	83	7	150	25	15	5	52	1.65
3751920--3752054	43	3.2	42	75	17	127	25	18	4	51	1.64
3754169--3754282	60	1.9	60	85	3	158	48	1	12	37	1.51
3758433--3758512	31	2.6	31	79	0	88	32	25	16	26	1.96
3763170--3763275	31	3.4	31	78	7	97	34	15	17	32	1.91
3775172--3775240	5	13.8	5	76	11	70	75	2	5	15	1.12
3775177--3775250	25	2.9	25	95	2	130	72	4	5	17	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3775281--3775380	10	10.5	10	71	18	63	76	1	5	18	1.03
3775263--3775384	18	6.5	19	74	17	64	74	1	5	18	1.09
3776415--3776451	3	12.0	3	94	5	65	67	0	0	32	0.91
3776544--3776905	37	9.8	37	88	6	486	44	5	3	46	1.44
3776829--3776967	63	2.2	63	83	6	176	48	8	2	39	1.49
3776880--3776948	35	2.0	36	85	5	97	49	5	1	43	1.35
3776892--3776974	36	2.2	37	83	8	98	48	8	1	42	1.41
3777678--3778331	84	7.9	84	80	5	722	24	20	25	29	1.99
3777624--3778331	164	4.3	166	83	5	851	24	20	24	30	1.98
3777679--3778331	249	2.6	252	80	5	686	24	20	25	29	1.99
3782262--3782317	24	2.3	24	90	0	85	17	23	26	32	1.97
3782291--3782326	17	2.1	17	89	0	54	13	25	30	30	1.94
3784698--3784857	80	2.0	80	96	0	293	26	18	16	38	1.92
3784932--3785026	24	4.0	24	73	5	84	22	12	16	48	1.80
3785187--3785225	2	19.5	2	100	0	78	48	0	0	51	1.00
3787954--3787995	3	13.7	3	80	14	50	64	0	4	30	1.14
3787988--3788034	24	2.0	25	87	8	71	53	4	0	42	1.20
3788072--3788357	37	7.8	37	82	8	309	45	5	2	46	1.39
3788079--3788446	75	5.1	72	79	13	334	45	5	2	46	1.40
3788317--3788376	27	2.2	27	84	0	84	46	5	1	46	1.34
3788281--3788418	63	2.2	62	83	7	165	50	6	1	42	1.37
3788332--3788400	35	2.0	36	85	5	97	49	5	1	43	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3788344--3788412	36	1.9	35	85	2	93	49	7	1	42	1.39
3788845--3788884	2	20.0	2	100	0	80	50	0	0	50	1.00
3791446--3791529	2	44.5	2	83	11	97	45	2	2	50	1.27
3791426--3791519	28	3.4	26	80	11	89	44	3	5	46	1.42
3791426--3791526	30	3.7	26	80	14	80	45	2	4	46	1.40
3791446--3791534	30	2.9	31	94	5	162	43	3	3	49	1.35
3792677--3792716	2	20.0	2	100	0	80	50	0	0	50	1.00
3795624--3795802	83	2.2	83	98	0	349	36	15	9	37	1.80
3799565--3799629	21	3.1	21	93	0	103	40	10	33	15	1.82
3801833--3802932	201	5.6	201	85	6	1514	37	14	16	32	1.89
3804405--3804450	6	7.7	6	87	0	65	43	4	32	19	1.71
3804405--3804450	12	3.8	12	91	0	74	43	4	32	19	1.71
3804405--3804454	18	2.8	18	90	0	73	42	4	32	22	1.72
3805721--3806214	251	2.0	251	86	4	701	37	16	15	29	1.90
3808846--3809578	200	3.6	196	81	7	708	40	14	15	30	1.86
3809575--3809735	87	1.9	87	97	0	304	32	14	12	39	1.84
3809657--3809701	23	2.0	23	90	0	72	40	17	8	33	1.81
3810075--3810218	72	2.0	72	88	0	216	43	11	7	36	1.70
3813764--3813827	28	2.3	28	94	0	110	42	15	3	39	1.63
3818277--3818328	18	2.9	18	83	11	70	28	32	21	17	1.96
3818536--3818605	18	3.9	18	88	0	104	28	31	17	22	1.96
3820621--3820982	49	7.4	49	75	6	151	20	17	26	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3820632--3820983	98	3.6	97	77	8	284	19	17	27	34	1.95
3821427--3821826	138	2.9	137	82	1	440	20	18	25	36	1.95
3821440--3821821	44	8.4	44	71	9	221	19	18	25	36	1.95
3824446--3824500	20	2.9	19	84	7	69	72	0	3	23	1.00
3826105--3826178	36	2.1	36	97	0	139	32	2	14	50	1.58
3831437--3831486	22	2.3	22	100	0	100	28	4	18	50	1.65
3832763--3832817	28	2.0	26	82	6	65	34	21	18	25	1.96
3833391--3833424	16	2.1	16	88	0	50	14	5	17	61	1.52
3835193--3835222	6	4.8	6	95	4	51	53	0	0	46	1.00
3836481--3836528	2	24.0	2	100	0	96	50	0	0	50	1.00
3842091--3842147	15	3.7	15	72	9	60	22	33	26	17	1.96
3847731--3847824	14	6.6	14	70	22	52	68	6	8	17	1.37
3847718--3847824	43	2.5	42	77	17	103	68	5	7	18	1.34
3847808--3847845	19	2.0	19	89	0	58	57	5	7	28	1.49
3848945--3849504	119	4.8	119	79	5	554	26	21	14	37	1.92
3849284--3849339	20	2.9	19	70	19	53	21	21	10	46	1.81
3849760--3850260	99	5.0	102	82	6	558	39	10	16	32	1.83
3849760--3850260	208	2.5	201	83	5	620	39	10	16	32	1.83
3853316--3853371	20	2.8	20	80	0	67	26	25	21	26	1.99
3863699--3863797	20	4.7	20	72	17	76	26	20	20	33	1.97
3865504--3865539	2	18.0	2	100	0	72	50	0	0	50	1.00
3875585--3875616	2	16.0	2	93	0	55	46	50	3	0	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3876000--3876044	24	1.9	24	95	4	83	31	22	22	24	1.99
3881621--3881698	29	2.8	27	78	17	79	66	3	11	17	1.38
3885956--3886151	39	5.0	39	81	2	214	32	25	26	16	1.96
3886867--3886920	25	2.2	25	93	0	90	31	18	24	25	1.97
3887309--3887342	17	1.9	18	88	5	52	64	0	20	14	1.28
3887818--3887855	18	2.1	18	95	0	67	10	7	47	34	1.67
3890991--3891083	46	2.0	46	97	0	177	23	19	10	46	1.81
3891271--3891318	20	2.5	20	86	10	64	31	14	4	50	1.62
3893882--3893924	21	2.0	22	86	4	61	25	16	20	37	1.93
3896765--3896819	21	2.7	20	80	5	65	21	21	30	25	1.98

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