genome.fa.s8245.2.7.7.80.10.50.1000.18.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  18  of  33  ( 3922 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)
3636902--3636959	14	3.9	14	81	16	71	10	17	22	50	1.76
3636885--3636975	32	2.8	33	91	3	148	12	18	19	49	1.79
3636969--3637014	20	2.3	20	88	0	65	15	21	26	36	1.93
3637496--3637540	18	2.5	18	88	0	72	13	15	44	26	1.83
3638860--3638902	20	2.2	20	91	0	68	53	20	18	6	1.67
3639181--3639224	22	2.0	22	95	0	79	18	15	45	20	1.85
3639412--3639464	20	2.7	20	93	0	88	24	18	28	28	1.98
3639392--3639503	20	5.5	20	77	5	82	23	17	23	35	1.95
3639432--3639509	41	1.9	41	83	0	102	23	16	20	39	1.92
3639495--3639570	21	3.7	21	78	3	91	17	25	17	40	1.90
3639495--3639587	41	2.3	41	96	0	141	19	24	16	39	1.91
3639514--3639585	20	3.5	20	79	3	90	16	23	18	41	1.89
3643696--3643725	2	15.0	2	100	0	60	50	0	0	50	1.00
3644184--3644229	18	2.5	20	86	10	62	8	4	32	54	1.51
3645354--3645407	24	2.2	24	90	0	81	20	25	25	27	1.99
3646977--3647034	29	2.0	29	96	0	107	18	3	15	62	1.47
3648251--3648288	20	1.9	20	100	0	76	13	5	7	73	1.22
3650576--3650612	15	2.5	15	95	0	65	16	13	16	54	1.72
3650646--3650861	54	4.0	54	85	0	290	30	16	17	35	1.92
3651519--3651588	34	2.1	32	86	5	95	22	30	15	31	1.95
3651870--3651912	21	2.0	21	95	0	77	27	27	20	23	1.99
3651948--3651990	21	2.0	21	95	0	77	16	27	41	13	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3652024--3652103	21	4.1	21	78	18	100	12	27	37	22	1.90
3652026--3652097	36	2.0	36	94	0	126	13	27	34	23	1.93
3652047--3652076	15	2.0	15	100	0	60	13	26	33	26	1.93
3652193--3652251	29	2.0	31	93	6	104	44	16	3	35	1.65
3656196--3656229	13	2.6	13	100	0	68	47	0	14	38	1.45
3660173--3660307	62	2.1	64	89	2	202	48	2	6	42	1.41
3660209--3660272	25	2.5	26	87	5	94	45	3	6	45	1.44
3660245--3660332	39	2.2	41	87	6	126	50	1	5	43	1.33
3660320--3660351	2	16.5	2	93	6	57	53	0	0	46	1.00
3660279--3660389	52	2.2	51	84	9	145	49	0	6	44	1.27
3660334--3660552	38	5.9	37	83	10	236	44	1	8	45	1.42
3660245--3660420	92	1.9	89	84	7	230	47	0	7	44	1.36
3660134--3660552	37	11.1	37	72	21	236	45	1	7	44	1.42
3660547--3660573	6	4.5	6	100	0	54	18	0	0	81	0.69
3661384--3661413	6	5.0	6	100	0	60	33	0	0	66	0.92
3662358--3662415	16	3.8	16	79	4	57	12	12	0	75	1.04
3662357--3662418	31	2.0	32	87	3	90	12	12	0	74	1.08
3662655--3662765	56	2.0	56	94	0	195	32	19	23	24	1.98
3667083--3667121	18	2.2	18	85	0	51	35	5	5	53	1.45
3668784--3668830	21	2.2	21	100	0	94	12	27	21	38	1.90
3673804--3673860	12	4.5	13	86	6	82	35	12	7	45	1.69
3673804--3673860	25	2.3	25	100	0	114	35	12	7	45	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3677495--3677536	2	21.0	2	100	0	84	50	0	0	50	1.00
3677517--3677912	38	10.7	37	85	9	474	46	2	8	42	1.46
3677716--3677818	12	8.2	12	70	22	70	43	0	12	43	1.42
3677922--3677991	31	2.3	31	85	9	90	25	2	1	70	1.10
3677920--3677981	28	2.3	27	80	5	70	29	0	1	69	0.98
3679478--3679558	15	5.4	15	73	5	56	29	4	22	43	1.74
3680084--3680164	15	5.4	15	73	5	56	29	4	22	43	1.74
3680278--3680357	23	3.5	23	70	11	65	21	25	23	30	1.99
3680291--3680341	24	2.1	24	85	0	66	25	21	21	31	1.98
3684913--3684951	20	2.0	20	90	10	62	56	7	17	17	1.64
3684701--3685173	181	2.6	182	87	3	659	42	13	17	26	1.86
3685085--3685140	20	2.8	19	76	7	58	55	8	14	21	1.66
3687362--3687405	21	2.1	21	91	0	70	40	11	31	15	1.83
3687439--3687504	33	2.0	33	91	5	107	30	0	46	22	1.52
3689291--3689339	19	2.6	19	96	0	89	32	2	10	55	1.45
3689458--3690634	200	5.9	200	96	0	2090	37	14	16	31	1.89
3692096--3692177	6	13.7	6	84	0	74	37	6	32	23	1.79
3692096--3692159	18	3.6	18	82	0	92	39	7	32	20	1.81
3692113--3692178	3	22.0	3	80	0	78	36	4	33	25	1.77
3692096--3692177	36	2.3	36	95	0	146	37	6	32	23	1.79
3692096--3692177	12	6.8	12	84	0	92	37	6	32	23	1.79
3693388--3694318	183	5.1	183	94	1	1622	35	14	16	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3693388--3694318	365	2.5	366	95	2	1669	35	14	16	32	1.89
3697159--3697235	22	3.5	22	85	5	102	35	5	22	37	1.76
3697159--3697230	23	3.2	22	90	2	99	34	5	22	37	1.77
3696813--3698584	462	3.7	488	91	5	2980	41	7	10	40	1.69
3697648--3697720	23	3.2	23	92	0	119	34	5	21	38	1.77
3698109--3698173	23	2.8	23	92	0	103	38	3	20	38	1.68
3698110--3698182	23	3.2	22	88	3	92	35	4	19	41	1.70
3699493--3699614	21	5.8	21	97	0	226	45	4	0	50	1.20
3699638--3699831	79	2.5	79	80	8	191	48	7	9	34	1.64
3701543--3702086	272	2.0	272	100	0	1088	34	10	11	44	1.74
3702699--3702736	2	19.0	2	100	0	76	50	0	0	50	1.00
3703785--3703901	28	4.2	28	95	0	207	15	22	31	30	1.95
3711472--3711528	28	2.0	28	96	0	105	7	29	12	50	1.66
3711929--3711966	3	12.7	3	83	10	51	60	0	0	39	0.97
3711929--3711967	11	3.5	11	89	6	53	58	0	0	41	0.98
3712195--3712573	129	2.9	129	84	3	483	27	17	29	25	1.97
3712658--3712786	68	2.0	66	81	7	156	37	12	19	31	1.89
3712678--3712960	33	8.3	34	71	11	161	36	12	21	29	1.90
3712897--3712989	33	2.8	33	75	12	91	38	11	17	32	1.86
3713029--3713236	62	3.3	62	73	12	183	41	11	17	29	1.84
3720307--3720364	3	19.0	3	92	3	98	63	0	0	36	0.94
3739503--3739527	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3739527--3739557	2	15.5	2	93	0	53	54	45	0	0	0.99
3739557--3739592	2	18.0	2	100	0	72	50	0	0	50	1.00
3749182--3749235	22	2.6	21	80	8	65	35	14	20	29	1.93
3751667--3751787	60	2.0	60	98	0	233	28	14	18	38	1.90
3753517--3753552	3	12.0	3	87	0	54	27	33	0	38	1.57
3754230--3754526	148	2.0	148	100	0	594	33	14	20	30	1.93
3756609--3756690	38	2.1	39	86	2	112	40	21	8	29	1.83
3758251--3758290	19	2.0	20	85	4	55	57	5	5	32	1.42
3762487--3762550	32	2.0	32	96	0	119	25	23	25	26	2.00
3762519--3762585	21	3.2	21	82	0	98	25	26	22	25	2.00
3762575--3762727	21	7.2	21	80	9	134	25	22	18	33	1.97
3762568--3762692	62	2.0	64	84	7	166	24	22	20	33	1.97
3762637--3762713	23	3.5	23	89	6	108	23	22	18	36	1.95
3763335--3763367	6	5.5	6	100	0	66	0	15	51	33	1.43
3763481--3763554	21	3.5	21	92	0	121	22	21	28	27	1.99
3764778--3764854	18	4.6	18	71	15	74	19	49	18	12	1.79
3764782--3764860	31	2.5	31	85	0	113	18	46	18	15	1.84
3764832--3764875	13	3.2	13	90	6	61	15	43	22	18	1.88
3764836--3764882	8	6.5	8	77	22	59	14	38	25	21	1.92
3764852--3764883	7	4.4	7	92	7	55	12	34	28	25	1.92
3764836--3764882	15	3.3	15	91	5	71	14	38	25	21	1.92
3767300--3767413	24	4.8	24	86	8	153	22	16	19	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3767351--3767423	24	3.1	24	84	5	78	21	15	19	43	1.87
3768344--3768425	21	3.8	21	73	14	60	52	2	1	43	1.22
3768372--3768415	9	4.7	9	84	15	54	54	0	2	43	1.12
3783663--3783689	13	2.1	13	100	0	54	18	14	22	44	1.86
3786290--3786567	42	6.5	43	89	3	393	36	24	21	16	1.94
3786290--3786567	86	3.2	85	88	4	391	36	24	21	16	1.94
3791450--3791730	42	6.6	42	90	2	409	33	24	24	17	1.97
3791450--3791730	86	3.3	85	87	5	406	33	24	24	17	1.97
3798803--3798851	20	2.5	20	93	0	80	28	30	16	24	1.96
3799117--3799160	20	2.2	20	91	0	70	27	29	15	27	1.96

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