genome.fa.s8959.2.7.7.80.10.50.1000.18.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: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4521124

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

This is table  18  of  21  ( 2431 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)
3675567--3675600	17	2.1	16	88	5	50	14	8	0	76	1.01
3676171--3676435	37	7.2	37	82	8	292	46	5	2	45	1.40
3676171--3676435	73	3.6	73	85	9	326	46	5	2	45	1.40
3676171--3676435	111	2.4	110	88	5	376	46	5	2	45	1.40
3676617--3676713	21	4.6	21	80	0	122	18	19	26	35	1.95
3676617--3676745	42	3.1	42	85	4	145	20	18	24	35	1.95
3677576--3677765	42	4.5	42	95	1	335	34	25	21	19	1.96
3677573--3677859	63	4.6	61	80	11	316	33	25	21	20	1.97
3677573--3677859	21	13.8	21	76	14	274	33	25	21	20	1.97
3677871--3677923	21	2.5	21	90	0	79	16	18	32	32	1.94
3678357--3678381	2	12.5	2	100	0	50	0	52	0	48	1.00
3681561--3681628	19	3.5	19	70	7	55	27	1	14	55	1.48
3681547--3681626	40	2.0	40	88	4	119	25	1	18	55	1.51
3689392--3689445	26	2.0	27	96	3	101	37	27	14	20	1.92
3690772--3690822	24	2.1	24	92	0	84	47	11	21	19	1.81
3696238--3696321	7	12.9	7	74	12	56	47	33	0	19	1.49
3696269--3696303	18	1.9	18	88	11	54	57	25	0	17	1.40
3697960--3698043	26	3.3	26	70	12	93	59	0	3	36	1.15
3697971--3698045	18	4.4	18	66	24	63	56	0	4	40	1.18
3698015--3698055	22	1.9	21	85	5	55	60	0	2	36	1.10
3698011--3698060	18	2.8	19	77	17	54	62	2	2	34	1.18
3718945--3719020	35	2.2	35	92	0	125	38	9	21	31	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3719528--3719552	2	12.5	2	100	0	50	48	0	0	52	1.00
3719584--3719628	17	2.6	18	82	7	56	20	6	0	73	1.05
3720543--3720581	13	3.0	13	88	7	53	25	43	12	17	1.85
3726106--3726134	9	3.2	9	100	0	58	68	0	10	20	1.18
3727068--3727514	109	4.1	109	93	1	745	32	26	19	21	1.97
3727967--3728038	35	2.1	35	94	0	126	38	12	22	26	1.89
3728506--3728561	22	2.5	23	78	18	57	25	7	0	67	1.15
3728520--3728562	23	1.9	22	90	4	68	25	4	0	69	1.07
3728514--3728566	27	1.9	29	85	11	76	28	3	0	67	1.07
3728600--3728648	22	2.2	22	82	7	55	20	6	0	73	1.04
3728614--3728657	20	2.0	23	83	12	58	22	6	0	70	1.11
3736096--3736291	41	4.8	41	89	1	277	28	10	21	39	1.87
3737200--3737251	22	2.4	22	93	0	86	50	9	11	28	1.70
3740517--3740730	36	5.9	36	85	2	259	18	28	21	31	1.97
3740517--3740730	108	2.0	108	85	0	293	18	28	21	31	1.97
3744671--3744813	43	3.3	43	89	1	198	22	18	20	39	1.93
3744671--3744830	43	3.7	43	86	0	194	24	18	20	36	1.94
3755068--3755108	16	2.4	16	88	8	55	63	9	12	14	1.52
3758151--3758655	165	3.1	164	80	5	497	33	18	19	29	1.95
3758151--3758665	41	12.5	41	77	5	432	33	18	19	28	1.95
3770791--3770918	29	4.4	29	77	2	114	39	2	15	42	1.60
3771845--3771913	23	3.0	23	86	0	93	20	21	27	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3772049--3772102	28	1.9	28	81	7	65	37	1	18	42	1.61
3777479--3777642	29	5.7	29	77	0	130	37	1	15	45	1.57
3780334--3780490	65	2.4	65	85	6	203	29	22	19	27	1.98
3786277--3786357	23	3.6	22	78	6	92	25	27	22	24	2.00
3786258--3786330	21	3.5	20	75	12	58	28	26	21	23	1.99
3786258--3786353	44	2.2	43	85	9	124	28	26	20	25	1.99
3788490--3788646	65	2.4	64	80	9	167	29	20	19	30	1.97
3791627--3791753	64	2.0	64	100	0	254	37	17	4	40	1.71
3792624--3792673	20	2.5	20	93	0	82	26	18	22	34	1.96
3817540--3817664	38	3.3	38	76	13	116	32	12	11	43	1.78
3817549--3817668	36	3.2	38	77	13	104	30	15	10	45	1.78
3817636--3817887	35	7.2	35	72	12	196	26	16	11	45	1.81
3817603--3817881	144	2.0	140	84	2	369	26	16	11	44	1.82
3817547--3817887	74	4.8	72	76	11	269	28	15	11	44	1.81
3817646--3817888	33	7.0	32	70	13	126	25	17	11	44	1.83
3818143--3818240	22	4.8	22	78	16	111	25	30	21	22	1.99
3818185--3818214	15	2.0	15	93	0	51	20	36	26	16	1.93
3818199--3818245	22	2.1	22	88	0	67	25	29	19	25	1.98
3821527--3821578	18	2.8	19	85	8	72	25	19	17	38	1.93
3826299--3826336	19	2.0	19	100	0	76	21	5	10	63	1.46
3835498--3835538	20	2.1	20	86	4	57	36	12	4	46	1.63
3835983--3836018	17	2.1	18	89	5	56	11	19	2	66	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3838527--3838599	21	3.5	21	92	0	110	35	30	13	20	1.91
3838521--3838669	77	1.9	77	83	0	190	34	27	14	23	1.93
3838610--3838699	42	2.1	42	83	0	108	37	21	14	26	1.92
3839931--3839971	20	2.0	20	85	0	55	31	7	0	60	1.24
3843602--3843668	23	2.9	23	84	0	89	17	26	23	31	1.97
3843698--3843731	17	2.1	17	88	5	52	32	23	5	38	1.79
3844455--3844488	16	2.1	17	88	5	52	38	2	17	41	1.65
3848602--3848763	29	5.6	29	87	0	236	38	23	4	32	1.76
3855666--3855763	29	3.4	29	90	2	153	40	22	5	31	1.76
3860014--3860530	257	2.0	258	99	0	1018	39	10	14	34	1.82
3861764--3862064	150	2.0	151	98	1	579	48	7	13	30	1.71
3864596--3864649	18	3.0	18	100	0	108	44	11	16	27	1.82
3871089--3871139	20	2.5	20	93	0	84	33	17	19	29	1.95
3882750--3882860	42	2.6	42	88	0	168	24	15	10	49	1.76
3883829--3883904	23	3.4	22	78	12	66	77	5	2	14	1.05
3884417--3884531	22	5.3	22	70	15	78	68	2	5	23	1.22
3884421--3884465	11	4.2	11	88	2	56	68	4	4	22	1.25
3884478--3884563	33	2.6	33	74	18	81	65	1	5	27	1.23
3884511--3884577	24	2.9	22	78	14	64	64	0	8	26	1.23
3884417--3884576	11	15.6	10	67	24	52	66	1	6	25	1.25
3884475--3884579	20	5.3	20	67	25	62	65	0	5	27	1.21
3885113--3885217	37	2.8	37	86	0	147	31	15	14	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3885940--3886451	106	4.9	106	84	3	624	24	18	24	33	1.96
3885941--3886451	206	2.4	207	83	3	641	24	18	24	33	1.97
3886370--3886514	63	2.3	63	90	2	229	24	17	24	33	1.96
3886273--3886617	169	2.1	166	93	1	582	24	17	24	34	1.96
3886433--3887355	106	8.9	105	85	8	1209	23	17	24	35	1.95
3888016--3888092	22	3.5	22	84	7	111	20	12	27	38	1.89
3888695--3888754	24	2.4	25	78	15	63	1	15	5	78	1.00
3888708--3888774	14	4.7	15	77	15	70	0	16	5	77	0.95
3888709--3888774	29	2.3	27	78	16	71	0	16	6	77	0.96
3890399--3890427	15	1.9	15	100	0	58	13	17	27	41	1.87
3893047--3893101	26	2.1	25	86	6	74	63	0	1	34	1.05
3893061--3893106	18	2.7	17	78	15	51	65	0	2	32	1.05
3893552--3893725	9	18.8	9	68	19	58	68	1	5	24	1.19
3893620--3893723	3	36.3	3	72	18	55	68	0	3	26	1.13
3893593--3893752	82	1.9	83	81	10	195	68	1	6	24	1.20
3893675--3893725	22	2.3	22	82	0	66	72	0	5	21	1.05
3894275--3894380	37	2.9	37	88	0	158	31	15	14	39	1.86
3896886--3896960	26	2.7	28	78	14	84	46	1	4	48	1.29
3896884--3896943	26	2.4	25	91	2	93	48	1	1	48	1.21
3898264--3898323	30	2.0	30	100	0	120	10	20	30	40	1.85
3906542--3906604	28	2.2	28	100	0	126	30	23	20	25	1.99
3906476--3906657	94	2.0	92	84	6	242	30	23	20	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3906629--3906677	19	2.6	19	84	9	57	24	28	20	26	1.99
3912895--3912938	21	2.0	22	91	8	72	59	4	6	29	1.44
3914624--3914652	2	14.5	2	100	0	58	48	0	0	51	1.00
3946002--3946087	29	3.0	29	79	14	88	55	6	17	19	1.64
3946000--3946104	29	3.6	28	76	9	86	59	7	15	18	1.59
3946226--3946301	23	3.2	23	62	17	55	57	17	6	18	1.60
3946219--3946318	49	2.0	50	98	1	193	58	14	10	18	1.63
3947651--3947694	3	14.7	3	90	0	70	61	0	4	34	1.16
3948923--3948966	15	2.8	16	86	10	56	18	6	0	75	1.02
3948933--3948966	16	2.1	17	94	5	61	17	5	0	76	0.98

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