genome.fa.s8756.2.7.7.80.10.50.1000.16.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: VEPZ01008756.1 Hibiscus syriacus cultivar Beakdansim tig00111848_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4584045

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  16  of  21  ( 2443 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)
3514946--3515039	17	5.2	17	67	15	64	17	5	2	75	1.08
3515016--3515045	14	2.2	13	94	5	51	16	0	0	83	0.65
3514943--3515108	78	2.2	73	86	9	219	17	7	2	72	1.18
3514936--3515081	38	3.6	42	79	13	171	18	6	2	73	1.14
3514961--3515119	74	2.1	78	84	6	211	17	8	3	71	1.24
3518767--3518812	22	2.0	23	83	4	58	63	10	4	21	1.44
3521581--3521667	28	3.1	28	93	0	147	50	2	12	34	1.53
3525740--3525792	21	2.5	20	85	8	70	37	5	0	56	1.23
3525809--3525834	13	2.0	13	100	0	52	23	0	0	76	0.78
3525929--3525969	16	2.6	16	88	0	55	75	2	0	21	0.92
3528162--3528404	135	1.8	135	100	0	486	26	20	17	34	1.95
3530108--3530136	12	2.3	13	94	5	51	13	24	10	51	1.72
3534295--3534347	24	2.3	24	83	6	65	7	16	15	60	1.57
3538537--3538589	24	2.3	24	83	6	65	7	16	15	60	1.57
3541218--3541265	24	2.0	25	83	4	62	8	25	16	50	1.73
3542750--3542834	23	3.8	23	67	17	63	8	17	14	60	1.58
3542786--3542837	24	2.2	24	82	6	61	7	17	15	59	1.58
3544209--3544253	20	2.3	19	84	7	54	42	11	15	31	1.82
3546889--3546928	21	1.9	21	90	10	64	42	2	0	55	1.13
3562686--3562711	13	2.0	13	100	0	52	38	30	7	23	1.83
3564602--3564771	90	1.9	88	92	2	286	38	11	6	44	1.66
3564736--3564805	22	3.3	21	70	16	63	51	2	2	42	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3566598--3566692	25	3.6	25	72	17	70	67	0	7	25	1.16
3566600--3566652	20	2.7	20	73	5	54	71	0	1	26	0.96
3567407--3567514	19	5.8	19	68	14	64	57	14	0	27	1.38
3567444--3567504	31	2.0	31	84	12	81	62	11	0	26	1.29
3567334--3567545	73	2.9	75	89	2	304	58	13	0	27	1.40
3568426--3568525	38	2.7	38	84	3	114	25	11	11	53	1.69
3569617--3569668	18	2.9	18	77	5	61	73	3	7	15	1.21
3573220--3573345	47	2.8	45	84	5	164	33	21	7	38	1.81
3573454--3573581	58	2.2	59	88	1	186	29	25	16	28	1.97
3584634--3585320	45	14.8	46	81	10	564	42	12	21	24	1.86
3584778--3584850	23	3.2	23	66	14	69	43	10	19	26	1.83
3591959--3592003	19	2.4	19	92	0	72	28	28	17	24	1.97
3592038--3592078	15	2.7	15	88	0	55	21	29	9	39	1.86
3601077--3601229	78	2.0	75	96	3	279	18	18	22	39	1.92
3603974--3604027	26	2.1	26	83	10	67	55	0	1	42	1.10
3610653--3610702	25	2.0	25	84	11	66	56	0	4	40	1.18
3615697--3615739	21	2.0	21	82	8	52	39	18	16	25	1.91
3618830--3618858	15	1.9	15	100	0	58	37	20	20	20	1.94
3626027--3626134	50	2.2	50	98	0	207	28	32	3	35	1.75
3626353--3626402	26	1.9	26	84	8	66	16	10	8	66	1.44
3630427--3630464	20	1.9	20	88	0	58	36	10	23	28	1.88
3643517--3643541	13	1.9	13	100	0	50	32	20	0	48	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3644420--3644463	21	2.2	20	88	8	63	40	22	13	22	1.89
3645827--3645856	14	2.1	14	93	0	51	36	10	6	46	1.64
3645838--3645898	25	2.5	24	80	15	72	40	8	6	44	1.60
3650819--3650852	15	2.3	15	100	0	68	38	35	5	20	1.77
3650892--3650949	20	2.8	20	76	19	55	22	20	0	56	1.42
3652855--3652913	29	2.0	30	90	3	93	38	10	1	49	1.47
3653404--3653438	14	2.5	14	90	0	52	57	0	0	42	0.99
3653526--3653583	21	2.9	20	78	14	66	48	0	0	51	1.00
3653647--3653788	66	2.1	66	81	12	166	40	3	9	46	1.53
3653717--3653793	35	2.1	37	84	13	99	42	2	6	48	1.42
3653736--3653969	115	2.0	123	87	9	353	44	4	6	44	1.51
3653932--3654012	36	2.4	34	87	6	110	48	3	2	45	1.33
3653932--3654024	36	2.7	35	85	11	106	46	4	4	45	1.42
3653993--3654035	23	1.9	23	85	4	61	39	2	6	51	1.42
3653938--3654024	34	2.7	32	81	13	97	45	4	4	44	1.44
3653924--3654041	33	3.7	31	75	15	82	46	4	4	44	1.42
3655297--3655347	24	2.2	23	82	10	59	21	5	0	72	1.05
3655490--3655523	14	2.4	14	86	13	52	17	2	5	73	1.16
3657506--3657550	19	2.4	19	92	3	74	11	13	8	66	1.44
3660786--3661330	84	6.6	84	80	5	608	30	24	21	24	1.99
3660737--3661246	248	2.1	244	83	2	637	29	24	21	24	1.99
3660786--3661330	165	3.3	166	83	5	753	30	24	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3660786--3661398	329	1.9	331	89	2	964	30	24	21	24	1.99
3661968--3662087	37	3.3	34	77	10	105	40	3	8	47	1.50
3661968--3662086	36	3.2	36	76	8	123	40	3	8	47	1.50
3662078--3662167	36	2.5	37	85	5	107	46	4	6	42	1.50
3662067--3662307	126	2.0	119	91	7	385	45	4	6	42	1.52
3662190--3662371	36	5.1	36	79	10	185	44	3	6	45	1.48
3662190--3662371	35	5.1	36	77	12	169	44	3	6	45	1.48
3662379--3662430	26	2.0	26	85	14	72	28	3	0	67	1.08
3662394--3662433	22	1.9	20	90	10	62	25	2	0	72	0.97
3663834--3663863	15	1.9	16	93	6	53	16	3	6	73	1.18
3664177--3664221	23	2.0	23	95	0	81	44	2	6	46	1.42
3664569--3664627	29	2.0	30	90	3	93	38	6	1	52	1.38
3665061--3665105	23	2.0	23	90	0	72	44	2	8	44	1.47
3665048--3665096	23	2.1	23	92	0	80	46	2	6	44	1.39
3665156--3665217	27	2.3	27	81	15	74	46	0	3	50	1.17
3671748--3671891	34	3.9	34	77	18	153	36	10	26	27	1.89
3671780--3671900	45	3.0	41	71	24	130	34	13	25	26	1.93
3671642--3671900	79	3.3	79	92	0	428	34	10	25	28	1.90
3671873--3672217	47	7.6	46	77	11	318	44	11	21	22	1.84
3671923--3671995	35	2.1	35	89	0	110	42	12	21	23	1.87
3672873--3672947	2	39.0	2	92	7	129	52	0	0	48	1.00
3676917--3677134	34	5.8	34	68	21	132	38	11	21	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3677115--3677337	47	4.8	47	90	1	333	43	13	20	23	1.87
3677197--3677324	20	5.7	20	68	22	76	40	13	25	21	1.89
3677217--3677337	20	5.0	26	65	25	86	43	14	21	20	1.87
3680413--3680475	29	2.1	31	82	11	78	23	9	3	63	1.39
3680480--3680525	16	2.9	16	81	12	51	15	0	6	78	0.95
3680481--3680532	22	2.4	21	81	15	70	15	0	5	78	0.92
3682601--3682896	149	2.0	149	81	1	351	38	17	22	21	1.93
3684273--3684307	14	2.7	13	91	8	54	77	2	20	0	0.90
3684269--3684325	22	2.7	20	82	15	69	80	3	14	1	0.92
3685418--3685450	9	3.7	9	84	15	50	33	0	0	66	0.92
3685426--3685473	3	16.0	3	83	16	64	31	0	2	66	1.03
3685418--3685473	18	3.3	18	82	12	82	32	0	1	66	1.03
3699365--3699655	105	2.7	107	82	8	340	39	15	19	25	1.90
3699823--3699880	3	19.0	3	85	3	62	31	0	6	62	1.22
3702814--3703063	113	2.2	113	87	1	358	31	12	21	34	1.91
3703079--3703188	42	2.6	41	90	5	175	29	20	17	32	1.96
3703357--3703469	42	2.8	40	82	8	147	25	20	23	30	1.98
3703364--3703478	20	5.7	20	65	13	65	24	22	22	30	1.99
3705772--3705813	11	3.9	11	81	6	50	14	4	7	73	1.21
3708407--3708469	30	2.1	30	88	2	92	39	3	3	53	1.33
3714151--3714195	14	3.1	14	81	12	56	60	0	0	40	0.97
3714149--3714195	13	3.5	13	82	11	51	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3714780--3714811	2	16.5	2	93	6	57	50	0	0	50	1.00
3714783--3714808	13	2.0	13	100	0	52	53	0	0	46	1.00
3714781--3714810	15	2.0	15	100	0	60	53	0	0	46	1.00
3715487--3715532	20	2.2	21	88	3	67	43	0	6	50	1.28
3716764--3716824	13	4.4	14	73	17	56	59	0	0	40	0.98
3716769--3716825	21	2.7	21	83	5	71	56	0	0	43	0.99
3716768--3716824	29	2.0	29	83	13	73	57	0	0	42	0.98
3718095--3718146	24	2.2	24	82	0	59	50	17	11	21	1.77
3718111--3718234	24	5.2	25	83	12	145	41	19	16	22	1.89
3721893--3721920	2	14.0	2	100	0	56	50	0	0	50	1.00

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