genome.fa.s7926.2.7.7.80.10.50.1000.17.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   39   40   41   42   

This is table  17  of  42  ( 5024 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)
3561202--3561318	34	3.4	34	72	9	101	45	18	13	22	1.85
3561288--3561342	23	2.4	23	96	0	101	41	18	16	23	1.89
3561254--3561319	34	1.9	34	90	0	105	46	19	12	21	1.82
3561334--3561442	30	3.7	29	72	15	89	55	18	7	18	1.64
3561754--3561796	21	2.1	21	87	12	63	46	4	9	39	1.57
3561714--3561823	54	2.0	53	84	6	141	40	3	12	42	1.60
3563068--3563215	15	9.5	15	82	10	181	46	0	2	50	1.17
3563209--3563287	18	4.4	18	66	23	58	35	0	11	53	1.37
3563218--3563260	22	2.0	22	95	0	77	37	0	11	51	1.39
3563195--3563292	32	3.4	32	73	26	126	37	0	9	53	1.33
3563195--3563523	54	6.1	54	84	13	451	34	0	12	52	1.40
3563319--3563913	32	18.7	32	68	24	277	34	0	13	52	1.41
3563343--3563399	18	3.4	18	69	18	59	33	0	12	54	1.38
3563384--3563427	22	2.0	22	95	0	79	34	0	11	54	1.36
3563437--3563478	22	2.0	22	95	4	77	35	0	14	50	1.43
3563569--3563611	22	2.0	22	100	0	86	34	0	13	51	1.42
3563537--3563930	54	7.3	54	72	18	320	34	0	13	52	1.41
3563623--3563664	22	2.0	22	95	4	77	35	0	14	50	1.43
3563405--3563655	133	1.9	131	97	2	477	33	0	14	51	1.42
3563754--3563797	21	2.1	21	95	0	79	36	0	13	50	1.42
3563807--3563849	22	2.0	22	100	0	86	34	0	13	51	1.42
3563351--3563883	185	2.9	185	96	1	982	34	0	13	51	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3563940--3564047	32	3.7	32	75	23	128	35	0	12	51	1.40
3563938--3563988	14	3.1	17	70	18	54	33	0	11	54	1.37
3563973--3564015	22	2.0	22	95	0	77	37	0	11	51	1.39
3563722--3564079	54	6.6	54	83	7	483	34	0	13	52	1.40
3564027--3564069	22	2.0	22	95	0	77	32	0	16	51	1.45
3564094--3564152	31	1.9	31	89	0	91	42	8	6	42	1.61
3565980--3566051	36	2.0	36	100	0	144	36	16	11	36	1.84
3570479--3570545	31	2.2	31	91	0	107	34	13	29	22	1.92
3571499--3571561	31	2.1	30	90	3	99	38	15	23	22	1.93
3571819--3571887	33	2.2	32	84	10	88	36	10	11	42	1.75
3571831--3571898	33	2.1	33	91	0	109	35	11	10	42	1.76
3571922--3571983	31	2.0	31	84	6	81	56	1	1	40	1.19
3571953--3572040	27	3.3	27	76	7	74	51	1	6	40	1.36
3571990--3572051	24	2.5	24	84	7	81	46	1	9	41	1.46
3572191--3572221	15	2.1	15	93	0	53	12	9	3	74	1.19
3577490--3577618	67	1.9	69	81	13	160	36	15	6	41	1.74
3577912--3577950	4	9.8	4	100	0	78	74	0	0	25	0.82
3578698--3578776	30	2.7	29	69	23	74	51	6	1	40	1.35
3579775--3579818	20	2.1	22	87	8	65	36	29	2	31	1.70
3579807--3579845	2	20.0	2	94	5	71	48	0	0	51	1.00
3580142--3580191	17	3.1	17	69	16	52	22	6	20	52	1.68
3583574--3583603	15	2.0	15	100	0	60	60	0	20	20	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3583577--3583611	15	2.3	15	90	0	52	65	0	17	17	1.27
3583618--3583680	31	2.1	31	85	8	85	71	3	7	17	1.23
3583714--3583746	15	2.2	15	94	0	57	84	0	15	0	0.61
3583699--3583826	25	5.1	24	71	21	86	78	0	5	15	0.98
3583733--3583848	36	3.2	36	75	19	89	75	0	2	20	0.97
3583696--3583824	47	2.8	46	80	12	131	79	0	5	14	0.96
3583769--3583832	29	2.1	31	80	13	80	75	0	1	23	0.90
3583767--3583848	30	2.5	32	80	13	96	74	0	1	24	0.89
3583695--3583821	9	14.0	9	72	11	80	78	0	5	14	0.97
3583701--3583826	26	5.0	25	71	21	95	78	0	5	15	0.97
3583792--3583897	43	2.5	40	77	19	108	66	1	0	30	1.08
3583872--3583941	24	3.0	23	79	6	77	68	4	4	22	1.25
3583885--3583954	23	2.9	24	76	20	67	70	4	5	20	1.26
3584269--3584344	33	2.3	34	80	15	88	34	14	14	36	1.87
3584800--3585860	104	10.3	104	80	10	878	22	19	25	32	1.98
3584950--3585862	301	2.9	309	78	13	831	21	19	25	32	1.97
3584848--3585857	509	2.0	508	81	8	1180	22	19	25	32	1.98
3586232--3586298	29	2.3	26	76	20	62	29	17	8	43	1.80
3586449--3586605	68	2.4	66	82	6	176	35	8	22	32	1.86
3586582--3586858	36	7.9	35	75	13	230	39	14	19	27	1.89
3586530--3586843	137	2.3	137	83	2	407	39	12	19	28	1.88
3586585--3586928	174	2.0	174	86	2	485	39	13	19	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3586718--3586879	36	4.4	36	88	2	234	38	12	20	28	1.89
3586906--3586963	21	2.8	21	91	0	89	39	15	24	20	1.91
3586926--3587035	35	3.1	35	70	8	89	39	16	20	23	1.92
3587937--3587980	22	2.0	22	91	8	72	27	11	22	38	1.88
3588591--3588639	23	2.2	22	85	10	64	0	14	6	79	0.91
3588584--3588641	22	2.6	22	79	12	66	1	13	6	77	1.05
3591924--3591953	15	2.0	15	93	0	51	60	0	16	23	1.36
3592036--3592141	20	5.2	19	70	20	54	75	0	4	18	1.03
3592034--3592180	12	11.0	13	68	20	63	72	0	4	23	1.07
3592093--3592178	18	4.7	19	73	22	69	68	0	2	29	1.02
3592089--3592157	25	2.8	25	75	18	72	72	0	2	24	0.98
3592048--3592180	42	3.2	43	76	14	116	72	0	4	22	1.08
3592091--3592198	36	3.1	34	81	10	119	66	0	2	29	1.12
3592091--3592181	35	2.5	36	85	8	121	69	0	2	28	1.00
3592583--3592652	34	2.1	34	94	0	122	32	14	11	41	1.81
3594686--3594805	37	3.3	37	92	3	190	35	2	18	44	1.63
3595215--3595248	16	2.1	16	94	0	59	32	8	26	32	1.87
3599548--3599691	34	4.2	34	80	9	141	33	5	20	40	1.75
3599575--3599691	34	3.3	36	89	5	186	31	5	20	42	1.74
3599788--3599819	12	2.7	12	100	0	64	53	28	0	18	1.45
3612939--3612968	3	10.0	3	100	0	60	66	0	0	33	0.92
3620099--3620557	136	3.4	136	91	0	756	33	25	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3620443--3620543	43	2.4	43	79	9	111	31	29	16	21	1.96
3620436--3620543	40	2.6	40	77	8	119	31	29	17	21	1.96
3620506--3620658	52	2.9	52	82	2	173	32	24	15	27	1.95
3620709--3620847	53	2.6	53	89	0	206	34	23	17	25	1.96
3620383--3620972	189	3.1	188	90	0	903	33	24	16	25	1.96
3620767--3621255	136	3.6	136	87	1	665	34	24	15	25	1.95
3622743--3622768	5	5.2	5	100	0	52	57	0	0	42	0.98
3624540--3625189	228	2.9	227	83	1	728	29	26	25	19	1.98
3627234--3627280	21	2.2	21	80	0	58	27	0	4	68	1.08
3627244--3627279	12	3.2	12	77	22	51	25	0	0	75	0.81
3628655--3628692	3	13.0	3	83	5	51	36	0	0	63	0.95
3630110--3630135	2	13.0	2	100	0	52	50	0	0	50	1.00
3630205--3630443	132	1.8	126	88	7	363	38	8	8	44	1.66
3630409--3630450	19	2.4	18	88	11	61	57	0	0	42	0.99
3632832--3632879	23	2.1	23	88	0	69	35	12	18	33	1.89
3632919--3633588	334	2.0	335	97	0	1270	38	10	7	42	1.69
3633631--3633703	23	3.2	23	78	0	74	41	17	5	35	1.73
3634049--3634114	25	2.6	25	80	0	87	42	13	9	34	1.76
3635651--3635716	33	2.0	33	84	0	87	24	46	0	28	1.52
3635750--3635814	21	3.1	21	80	6	69	15	29	15	40	1.88
3638046--3638088	20	2.3	18	85	14	61	20	16	11	51	1.75
3638051--3638097	20	2.4	19	82	10	67	19	17	10	53	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3638219--3638264	20	2.3	20	89	10	76	17	17	10	54	1.70
3642518--3642760	121	2.0	121	100	0	486	36	10	27	24	1.89
3643960--3644064	45	2.3	45	98	0	201	34	20	16	28	1.94
3644068--3644176	56	1.9	56	85	5	148	29	22	20	27	1.98
3644157--3644205	19	2.6	19	84	9	57	24	28	20	26	1.99
3651609--3651652	21	2.1	21	82	0	52	9	43	15	31	1.79
3652823--3652893	19	3.7	19	94	0	115	28	32	19	19	1.97
3655485--3655535	24	2.2	23	82	3	57	45	17	13	23	1.84
3657428--3658763	616	2.2	612	85	5	1745	37	17	15	29	1.90
3657565--3658991	295	4.7	296	74	12	1024	37	15	15	30	1.89

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   39   40   41   42