genome.fa.s9001.2.7.7.80.10.50.1000.18.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  18  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)
3635999--3636104	44	2.4	44	91	0	167	36	10	25	27	1.88
3638433--3638477	17	2.6	17	96	0	81	37	28	15	17	1.91
3650348--3650373	13	2.0	13	100	0	52	53	7	23	15	1.67
3652586--3652643	26	2.4	24	75	13	57	24	6	0	68	1.13
3652712--3652774	18	3.5	18	69	16	58	26	6	1	65	1.26
3652943--3652975	17	1.9	17	88	11	50	15	12	0	72	1.12
3653022--3653060	18	2.2	17	82	13	51	17	2	2	76	1.01
3653041--3653067	12	2.2	12	100	0	54	14	0	0	85	0.61
3657386--3657499	32	3.5	32	80	8	115	29	13	18	38	1.89
3658077--3658399	106	3.0	106	86	0	432	33	23	20	23	1.97
3658671--3658755	37	2.3	37	87	2	118	24	17	16	41	1.90
3658623--3658867	102	2.4	102	93	0	409	30	18	13	36	1.90
3658623--3658957	102	3.4	93	89	3	400	30	18	13	37	1.90
3658880--3658952	37	2.0	37	94	0	128	26	19	13	41	1.88
3659017--3659119	36	2.8	37	91	2	172	27	21	13	37	1.91
3659134--3659250	36	3.2	36	84	7	155	26	19	13	40	1.89
3659030--3659216	102	1.8	102	84	6	254	27	20	12	39	1.89
3659248--3659324	39	1.9	39	86	2	109	42	25	6	24	1.78
3660121--3660189	33	2.2	31	94	5	120	44	13	18	23	1.84
3660121--3660178	20	3.2	20	64	31	58	43	13	18	24	1.87
3660410--3660500	30	3.0	30	93	3	148	49	8	14	27	1.72
3663464--3663507	16	2.8	16	96	0	79	70	6	18	4	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3663496--3663544	20	2.5	19	80	12	55	81	0	14	4	0.83
3664374--3664447	30	2.4	29	80	6	76	41	8	16	33	1.77
3666835--3666893	30	2.0	30	89	0	91	49	6	15	28	1.70
3667114--3667169	18	3.1	18	76	0	58	41	1	21	35	1.64
3668319--3668351	5	6.4	5	93	6	57	78	0	21	0	0.75
3668839--3668877	17	2.4	17	95	4	71	43	0	5	51	1.24
3672435--3672487	25	2.1	25	100	0	106	33	11	26	28	1.91
3674799--3674838	21	1.9	21	90	10	64	57	7	5	30	1.48
3679206--3679245	14	2.9	14	78	14	55	37	15	0	47	1.45
3680590--3680637	21	2.3	21	85	7	62	10	2	25	62	1.38
3681245--3681291	25	1.9	25	86	4	69	21	46	21	10	1.81
3682306--3682332	14	1.9	14	100	0	54	70	0	0	29	0.88
3682292--3682375	27	3.3	27	65	21	72	54	0	7	38	1.28
3682427--3682764	29	11.2	29	74	13	213	52	1	7	39	1.39
3682587--3682751	30	5.6	28	71	13	102	53	0	7	38	1.35
3683992--3684030	20	2.0	21	85	10	55	30	0	28	41	1.57
3685770--3685807	19	2.1	18	85	14	51	47	7	18	26	1.76
3685870--3685917	6	7.7	6	77	9	51	56	0	22	20	1.43
3685870--3685917	19	2.5	19	86	6	71	56	0	22	20	1.43
3685851--3685928	25	3.0	25	85	11	86	51	0	24	24	1.49
3685869--3685926	13	4.5	13	80	4	73	55	0	22	22	1.44
3687248--3687286	17	2.4	17	95	4	71	43	0	5	51	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3689718--3689830	37	3.0	37	84	3	136	59	4	4	31	1.37
3690219--3690270	21	2.4	21	81	12	61	59	3	1	34	1.27
3691500--3691820	81	4.0	81	91	0	502	26	24	12	36	1.91
3691770--3692025	68	3.8	68	93	2	426	28	23	14	33	1.94
3691826--3691998	32	5.2	32	64	22	104	30	23	14	31	1.94
3692395--3692567	58	3.0	59	87	3	235	34	20	13	32	1.91
3692979--3693036	22	2.8	20	82	10	71	25	27	18	27	1.98
3692987--3693031	22	2.0	23	91	4	74	26	28	17	26	1.98
3696374--3696697	68	4.8	68	88	0	461	31	22	13	32	1.93
3697598--3697652	22	2.7	19	76	17	56	23	27	20	29	1.99
3697616--3697658	22	2.0	22	85	0	59	23	27	18	30	1.98
3699179--3699290	24	4.7	24	87	6	147	37	21	16	25	1.93
3701723--3701764	20	2.1	20	100	0	84	28	28	28	14	1.95
3704236--3704327	29	3.1	30	75	6	80	36	17	4	41	1.69
3709681--3709855	36	4.9	36	94	0	296	41	17	16	24	1.89
3712267--3712714	243	1.8	243	89	0	709	35	11	25	27	1.91
3712267--3712740	81	5.9	81	86	0	635	35	11	25	27	1.91
3716479--3716527	27	1.9	24	88	12	71	10	26	0	63	1.26
3717061--3717133	19	3.7	19	77	13	76	34	17	16	31	1.93
3717671--3717720	18	2.8	17	76	8	55	50	12	12	26	1.74
3718094--3718169	32	2.4	32	84	0	98	34	19	15	30	1.93
3722266--3722304	20	2.0	20	89	0	60	38	23	15	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3723220--3723302	32	2.6	32	86	0	103	34	15	12	37	1.85
3725440--3725472	15	2.1	16	88	5	50	54	12	6	27	1.60
3725960--3725993	13	2.8	12	86	8	50	26	20	0	52	1.46
3727700--3727746	20	2.3	21	82	10	62	40	21	0	38	1.53
3731933--3731971	21	1.9	20	89	5	60	66	2	0	30	1.05
3735386--3735454	31	2.3	30	82	5	77	44	7	7	40	1.60
3740878--3740920	2	21.5	2	100	0	86	48	0	0	51	1.00
3749123--3749158	7	5.3	7	93	6	65	27	0	0	72	0.85
3750045--3750112	16	4.2	16	76	16	77	48	2	0	48	1.16
3750431--3750463	17	1.9	17	93	0	57	42	0	0	57	0.98
3750720--3750803	16	5.2	16	75	4	62	13	9	27	50	1.72
3750809--3750848	16	2.5	16	95	0	71	15	15	20	50	1.79
3750867--3750922	16	3.5	16	80	0	76	3	10	32	53	1.53
3757660--3757749	42	2.1	42	85	4	119	57	11	5	25	1.54
3762907--3762953	21	2.2	21	96	0	85	19	19	29	31	1.96
3763041--3763092	12	4.2	12	87	5	59	51	1	1	44	1.23
3763048--3763083	2	18.5	2	94	5	65	50	0	0	50	1.00
3763247--3763341	20	4.8	19	75	14	84	36	23	12	27	1.91
3763351--3763420	20	3.4	21	75	11	65	28	24	11	35	1.90
3763322--3763422	42	2.5	40	81	9	114	32	22	12	31	1.92
3763372--3763500	20	6.4	20	69	7	73	27	22	10	38	1.88
3763351--3763439	40	2.2	42	87	4	128	26	24	10	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3763373--3763459	40	2.2	40	85	4	113	28	22	9	39	1.85
3763492--3763540	20	2.5	20	93	0	89	28	24	6	40	1.79
3763640--3763701	22	2.8	22	97	0	115	19	48	12	19	1.81
3766635--3767196	53	10.5	53	93	1	928	24	25	17	31	1.97
3766635--3767196	107	5.3	107	94	1	952	24	25	17	31	1.97
3766619--3767196	160	3.6	159	92	1	933	24	25	17	31	1.97
3768534--3768605	9	7.6	9	87	6	54	9	12	1	76	1.08
3768546--3768625	26	3.0	26	81	15	101	10	15	0	75	1.05
3768545--3768625	9	9.1	9	86	10	96	9	14	0	75	1.05
3768533--3768605	10	7.5	10	90	4	80	9	12	1	76	1.07
3779500--3779549	24	2.1	24	92	0	82	26	20	16	38	1.92
3779794--3779823	9	3.3	9	90	0	51	73	0	26	0	0.84
3781416--3781525	21	5.2	21	82	4	141	38	35	7	19	1.79
3781625--3781832	42	5.0	42	88	4	271	23	12	38	25	1.89
3784606--3784675	22	3.2	22	93	0	122	18	12	48	20	1.80
3784787--3784962	20	8.7	20	71	9	133	35	12	24	27	1.91
3784789--3785017	40	5.7	40	77	10	198	33	13	24	28	1.93
3784787--3784960	60	2.9	60	78	3	170	36	12	24	27	1.91
3786446--3786483	19	2.1	17	90	9	58	52	0	0	47	1.00
3787844--3787896	24	2.2	24	93	0	88	26	28	18	26	1.98
3791230--3791358	45	2.9	45	81	3	136	18	27	29	24	1.98
3793852--3793931	20	4.0	20	68	18	58	52	2	0	45	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3793868--3793913	23	2.0	23	87	8	67	54	4	0	41	1.20
3806489--3806516	2	14.0	2	100	0	56	50	0	0	50	1.00
3813752--3813781	10	3.1	10	95	4	53	40	0	0	60	0.97
3841050--3841207	21	7.8	20	70	7	77	39	25	16	18	1.91
3841174--3841403	20	11.5	20	79	5	214	37	23	18	20	1.94
3842086--3842132	24	2.0	24	87	8	69	25	14	21	38	1.92
3842307--3842331	12	2.1	12	100	0	50	72	0	28	0	0.86
3844628--3844885	33	7.5	33	78	14	168	46	17	22	14	1.84
3844628--3844863	19	13.4	19	78	17	278	46	17	21	14	1.83
3844656--3844844	52	3.6	52	85	7	258	46	16	22	14	1.83

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