genome.fa.s9624.2.7.7.80.10.50.1000.19.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   38   

This is table  19  of  38  ( 4514 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)
3616169--3616867	5	139.8	5	97	0	975	55	19	4	20	1.61
3625067--3625329	142	1.9	142	97	0	499	37	19	9	33	1.84
3631872--3631944	25	2.9	25	70	15	60	47	5	0	46	1.25
3635132--3635267	67	2.0	67	92	0	227	39	18	16	25	1.91
3639799--3639840	22	1.9	22	95	0	75	23	40	23	11	1.88
3642907--3642932	13	2.0	13	100	0	52	38	15	0	46	1.46
3645302--3645362	23	2.8	23	75	7	65	22	36	22	18	1.95
3645301--3645381	21	3.8	21	73	7	56	25	35	22	16	1.94
3652258--3652312	22	2.5	22	78	0	65	29	7	23	40	1.81
3657831--3657867	6	6.2	6	87	0	56	5	16	43	35	1.71
3677545--3677596	22	2.4	22	76	0	59	30	7	21	40	1.81
3681207--3681273	20	3.3	20	97	0	125	47	8	22	20	1.78
3685253--3685321	22	3.2	21	76	17	61	21	7	8	62	1.48
3687702--3687746	18	2.5	18	96	0	81	44	6	42	6	1.57
3692063--3692101	19	2.1	19	95	0	69	33	10	20	35	1.86
3692401--3692846	136	3.3	135	87	3	617	33	26	17	23	1.96
3692999--3693045	3	15.7	3	95	0	85	34	2	0	63	1.06
3693657--3693684	10	2.8	10	100	0	56	60	0	28	10	1.30
3694193--3694222	2	15.0	2	92	0	51	50	3	0	46	1.18
3702758--3702817	31	1.9	31	89	0	93	43	13	16	26	1.85
3708622--3708664	15	3.0	15	86	6	63	58	0	32	9	1.30
3709545--3709571	14	1.9	14	100	0	54	22	0	0	77	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3718454--3718561	47	2.2	49	83	13	136	50	3	1	44	1.30
3723309--3723356	22	2.4	19	78	18	60	31	27	14	27	1.95
3723315--3723367	22	2.4	22	96	0	97	28	28	13	30	1.94
3725876--3725940	14	4.5	14	70	18	53	46	0	1	52	1.10
3725865--3725905	14	2.8	15	85	7	57	51	0	0	48	1.00
3725904--3725946	17	2.4	18	84	7	61	41	0	2	55	1.12
3726030--3726091	32	1.9	32	96	0	115	46	19	16	17	1.84
3728008--3728065	19	3.1	19	94	0	98	51	10	22	15	1.73
3728639--3728664	13	2.0	13	100	0	52	23	23	23	30	1.99
3728578--3728764	85	2.2	86	81	2	207	28	21	19	29	1.98
3728821--3728873	2	26.5	2	100	0	106	49	0	0	50	1.00
3743345--3743386	19	2.3	19	84	12	52	21	28	33	16	1.95
3743473--3743515	18	2.3	18	88	4	59	41	18	4	34	1.71
3745841--3745885	22	2.0	22	83	8	56	44	11	4	40	1.60
3746710--3747818	81	13.6	81	87	1	1468	29	23	12	34	1.91
3746710--3747818	163	6.8	162	87	1	1468	29	23	12	34	1.91
3746702--3747818	244	4.6	243	86	2	1463	29	23	11	34	1.91
3747778--3748023	68	3.6	68	92	0	411	30	24	15	30	1.96
3748234--3748401	55	3.0	55	84	2	230	29	20	16	34	1.94
3751229--3751295	18	3.8	18	76	9	68	38	7	14	38	1.75
3754012--3754065	20	2.7	20	100	0	108	20	16	33	29	1.95
3758424--3758491	23	3.0	23	86	0	91	19	25	26	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3760160--3760196	13	2.7	14	87	8	58	40	2	0	56	1.13
3763380--3763472	21	4.5	21	78	4	100	39	18	24	17	1.91
3763380--3763472	41	2.3	41	100	0	186	39	18	24	17	1.91
3763399--3763533	41	3.3	41	82	6	132	38	20	21	19	1.94
3763461--3763555	20	4.7	20	80	2	91	34	24	17	23	1.96
3763743--3763786	22	2.0	22	90	0	70	22	45	13	18	1.84
3764050--3764087	20	1.9	20	88	0	58	13	15	21	50	1.78
3765398--3765442	18	2.5	18	85	0	63	26	42	15	15	1.87
3765918--3765963	20	2.3	20	84	0	56	36	23	21	17	1.94
3765929--3765973	20	2.3	20	88	3	74	37	17	24	20	1.93
3765937--3766052	19	6.6	19	71	21	83	43	22	21	12	1.87
3765973--3766030	14	3.9	14	79	16	71	48	25	17	8	1.75
3765957--3766047	32	2.8	33	94	3	166	47	23	18	10	1.80
3766071--3766124	20	2.8	19	83	8	65	16	22	24	37	1.94
3767994--3768027	14	2.4	14	90	0	50	32	0	20	47	1.51
3768144--3768211	19	3.8	19	81	14	92	48	17	20	13	1.80
3768230--3768287	20	2.9	20	94	0	98	17	22	22	37	1.93
3769563--3769587	12	2.1	12	100	0	50	72	0	28	0	0.86
3771871--3771993	33	3.7	33	85	4	185	43	18	22	14	1.87
3771871--3771925	19	3.2	19	68	24	57	49	16	21	12	1.79
3771871--3772000	66	2.0	66	95	0	233	43	18	22	16	1.88
3771993--3772035	20	2.2	20	83	4	52	18	18	20	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3772176--3772212	14	2.6	14	91	0	65	45	24	0	29	1.53
3775698--3775819	33	3.5	33	83	5	136	40	23	22	13	1.89
3775677--3775821	19	8.1	19	70	20	98	42	22	22	13	1.87
3775672--3775822	20	8.6	18	70	22	99	43	21	22	13	1.87
3776152--3776204	20	2.7	20	93	0	88	26	20	28	24	1.99
3776213--3776266	20	2.7	20	97	0	99	25	18	24	31	1.97
3776153--3776269	61	1.9	61	85	0	162	23	17	24	33	1.97
3776153--3776287	61	2.2	61	81	2	155	22	20	24	32	1.98
3776385--3776448	19	3.3	19	88	2	65	23	18	31	26	1.98
3776398--3776448	19	2.7	19	96	0	93	21	21	31	25	1.98
3777487--3777532	16	2.7	18	80	13	69	36	6	28	28	1.82
3778106--3778196	39	2.3	40	90	1	148	39	39	12	8	1.74
3778174--3778253	30	2.6	31	84	4	99	41	26	11	21	1.86
3778557--3779175	257	2.4	252	83	10	779	25	11	21	41	1.87
3779463--3779509	18	2.7	17	80	6	58	29	31	8	29	1.87
3783939--3783996	24	2.4	24	100	0	116	17	51	6	24	1.69
3784841--3784873	15	2.3	15	89	5	50	30	0	9	60	1.27
3786465--3786508	20	2.2	20	88	4	63	36	4	4	54	1.41
3792093--3792641	273	2.0	273	100	0	1098	36	13	18	31	1.90
3793661--3793685	12	2.1	12	100	0	50	24	28	8	40	1.83
3793680--3793736	23	2.7	20	77	17	69	28	17	17	36	1.93
3796058--3796101	20	2.2	20	88	4	63	36	4	4	54	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3800821--3800906	32	2.7	32	100	0	172	32	13	23	30	1.93
3812817--3812900	23	3.7	23	77	0	78	35	21	20	22	1.96
3812868--3812941	23	3.2	23	80	0	67	33	22	25	17	1.96
3816241--3816374	36	3.8	36	79	4	148	29	20	14	35	1.93
3817418--3817497	17	4.7	17	93	0	115	2	22	32	42	1.67
3818080--3818112	14	2.4	14	94	0	57	57	9	6	27	1.53
3818095--3818157	18	3.3	18	75	12	63	47	6	1	44	1.38
3818989--3819571	43	13.2	43	76	10	407	48	7	17	26	1.73
3819125--3819405	139	2.0	138	82	13	339	47	6	19	26	1.72
3819847--3819884	19	2.0	19	85	10	51	23	10	18	47	1.79
3821852--3821956	42	2.5	42	90	1	167	19	11	16	53	1.72
3822250--3822313	28	2.2	28	83	8	76	53	0	1	45	1.10
3822271--3822323	20	2.7	19	73	18	54	49	0	1	49	1.12
3822318--3822362	23	2.0	23	86	0	63	53	2	2	42	1.25
3822680--3822719	20	2.0	20	85	0	53	35	17	7	40	1.78
3822693--3822780	15	5.5	15	75	17	79	35	20	6	37	1.79
3822703--3822774	36	2.0	35	89	2	108	34	22	6	36	1.81
3822717--3822757	21	2.0	21	90	0	64	29	24	7	39	1.82
3829600--3829638	15	2.7	15	85	14	55	69	0	0	30	0.89
3829598--3829639	16	2.7	15	79	20	50	71	0	0	28	0.86
3830313--3830351	3	13.0	3	100	0	78	0	33	0	66	0.92
3832833--3832920	10	9.1	10	77	12	94	18	23	30	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3832833--3832922	19	4.7	19	90	6	128	17	25	30	26	1.98
3832924--3832953	13	2.4	13	94	5	53	16	40	30	13	1.87
3839380--3839452	10	7.7	9	79	11	83	16	24	30	28	1.96
3839379--3839460	19	4.3	19	90	7	121	18	25	29	26	1.98
3839427--3839469	19	2.3	19	83	0	50	18	34	30	16	1.93
3839397--3839469	38	1.9	38	83	5	94	17	30	30	21	1.97
3839460--3839489	13	2.4	13	94	5	53	16	40	30	13	1.87
3844410--3844439	10	2.8	11	90	10	53	10	23	0	66	1.21
3844508--3844581	22	3.4	22	88	0	112	14	36	29	18	1.91
3844573--3844629	22	2.6	23	83	8	73	17	31	19	31	1.95

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   38