genome.fa.s7721.2.7.7.80.10.50.1000.15.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: VEPZ01007721.1 Hibiscus syriacus cultivar Beakdansim tig00109957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3738426

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  15  of  16  ( 1904 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)
3354444--3354783	133	2.5	133	84	3	412	40	10	16	32	1.82
3354623--3354691	35	1.9	36	88	2	104	47	11	13	27	1.76
3354658--3354884	101	2.3	97	80	6	249	40	9	16	33	1.82
3354854--3354924	36	2.0	36	94	0	124	45	9	11	33	1.73
3354742--3355203	136	3.4	135	77	6	432	40	9	16	33	1.80
3355123--3355212	36	2.5	36	87	5	119	44	6	12	36	1.68
3376372--3376937	55	10.2	55	85	3	722	24	19	17	38	1.93
3376372--3376937	111	5.1	111	87	2	769	24	19	17	38	1.93
3377357--3377404	20	2.4	20	82	6	62	18	25	18	37	1.94
3377414--3377570	78	2.0	78	90	2	244	33	19	13	33	1.91
3382904--3383291	56	7.0	56	87	2	525	23	17	18	39	1.92
3382911--3383291	111	3.4	111	87	1	532	23	17	18	39	1.92
3384414--3384462	19	2.7	17	84	9	53	26	20	28	24	1.99
3384433--3384538	45	2.3	45	87	7	144	30	19	19	30	1.97
3384587--3384642	28	2.0	28	96	0	103	17	12	35	33	1.88
3387253--3387331	23	3.6	22	77	5	97	25	24	24	26	2.00
3387256--3387350	21	4.4	20	74	13	75	26	21	24	28	1.99
3393115--3393276	64	2.5	61	75	11	157	27	19	22	30	1.98
3393573--3393622	20	2.5	21	83	9	68	20	26	20	34	1.96
3397278--3397328	20	2.5	20	96	0	93	31	35	19	13	1.91
3401447--3401524	3	26.0	3	94	0	138	64	1	1	33	1.10
3404334--3404389	21	2.7	21	82	0	76	35	17	17	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3417983--3418038	29	1.9	29	92	7	96	23	5	25	46	1.73
3419976--3420039	20	3.2	20	78	6	69	48	15	18	17	1.81
3423248--3423306	28	2.1	29	84	12	79	38	10	20	30	1.86
3435411--3435465	21	2.6	21	88	0	83	34	14	12	38	1.84
3440775--3441062	49	5.9	49	85	0	344	40	13	18	26	1.89
3459949--3460034	2	43.0	2	100	0	172	50	0	0	50	1.00
3460593--3460631	3	13.0	3	100	0	78	66	0	0	33	0.92
3475111--3475172	30	2.1	30	96	0	115	41	20	8	29	1.81
3475929--3475955	13	2.1	13	100	0	54	37	7	22	33	1.82
3478006--3478035	2	15.0	2	100	0	60	50	0	0	50	1.00
3481117--3481184	35	1.9	36	93	3	120	17	22	4	55	1.59
3481117--3481184	18	3.8	18	92	3	120	17	22	4	55	1.59
3494150--3494191	2	21.0	2	100	0	84	50	0	0	50	1.00
3496653--3496716	28	2.4	27	84	5	76	25	17	29	28	1.97
3496697--3496738	21	2.0	21	95	0	75	35	7	19	38	1.79
3498491--3498617	39	3.3	39	81	4	148	18	23	22	34	1.96
3501092--3501181	25	3.8	23	74	16	69	51	1	1	46	1.15
3501137--3501179	21	2.0	21	86	0	59	60	0	0	39	0.97
3501927--3501964	18	2.1	19	85	5	51	39	15	31	13	1.86
3502282--3502324	21	2.1	20	86	4	59	55	0	0	44	0.99
3505825--3505890	34	2.0	32	82	8	80	27	7	15	50	1.71
3506925--3506977	26	2.1	25	82	10	63	30	5	5	58	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3508772--3508856	38	2.2	39	91	6	136	38	21	17	22	1.93
3510108--3510145	19	1.9	20	89	10	60	71	0	7	21	1.11
3510114--3510155	21	2.0	20	82	13	50	69	0	9	21	1.17
3510111--3510157	20	2.3	20	79	13	53	72	0	8	19	1.10
3510710--3510741	6	5.7	6	89	10	50	56	25	0	18	1.42
3511334--3511371	20	2.0	20	89	5	60	47	0	0	52	1.00
3513773--3513819	14	3.1	15	77	20	53	63	0	0	36	0.94
3514114--3514310	43	4.5	44	70	17	126	24	18	31	25	1.97
3513982--3514320	130	2.5	133	82	3	389	24	17	31	27	1.97
3514086--3514361	130	2.1	130	81	4	322	26	17	30	25	1.97
3514364--3514591	65	3.5	65	83	4	257	43	12	17	25	1.85
3536611--3536662	18	2.9	18	85	5	61	61	3	1	32	1.25
3536611--3536648	3	12.7	3	94	0	67	65	0	2	31	1.06
3536660--3536692	2	16.5	2	100	0	66	51	0	0	48	1.00
3537267--3537306	12	3.1	14	75	20	50	20	0	35	45	1.51
3540678--3540728	18	2.8	18	90	0	84	19	23	29	27	1.98
3540675--3540727	9	5.9	9	75	0	52	20	24	28	26	1.99
3543660--3543743	28	3.0	28	85	1	114	17	40	27	14	1.88
3543811--3543872	28	2.2	28	91	5	99	29	19	35	16	1.93
3544019--3544082	3	21.3	3	100	0	128	34	0	0	65	0.93
3545587--3545749	62	2.8	55	71	21	150	41	6	13	39	1.69
3546982--3547014	12	2.8	12	95	4	59	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3546974--3547014	12	3.7	11	87	9	57	41	0	0	58	0.98
3547560--3547623	26	2.4	28	85	10	82	60	0	0	39	0.97
3553047--3553101	20	2.8	20	85	0	83	36	23	10	29	1.89
3553046--3553139	41	2.3	40	81	5	109	36	23	12	27	1.91
3555286--3555321	19	1.9	18	94	5	63	61	0	0	38	0.96
3555286--3555318	10	3.4	10	83	8	50	63	0	0	36	0.95
3555289--3555348	18	3.2	19	79	11	54	55	0	3	41	1.16
3566981--3567055	23	3.3	23	86	0	105	22	25	25	26	2.00
3569388--3569430	17	2.6	16	78	7	50	34	0	25	39	1.56
3572042--3572103	23	2.7	23	84	0	88	22	25	25	25	2.00
3574210--3574599	126	3.1	126	97	0	735	40	30	6	23	1.80
3575662--3575691	15	2.0	15	100	0	60	40	6	0	53	1.27
3576250--3576284	16	2.2	16	89	0	52	65	5	17	11	1.43
3577609--3577832	55	4.1	55	87	5	294	29	19	20	29	1.97
3580371--3580430	25	2.4	25	88	0	84	20	11	18	50	1.77
3580466--3580527	31	2.0	31	93	0	106	37	8	14	40	1.76
3584492--3584551	26	2.3	26	100	0	120	36	0	30	33	1.58
3586451--3586504	22	2.5	22	84	6	65	24	14	27	33	1.94
3586674--3586762	10	8.5	11	95	3	73	46	0	5	48	1.26
3586695--3586765	2	35.5	2	100	0	142	50	0	0	49	1.00
3590338--3590377	18	2.3	17	86	4	53	25	10	25	40	1.86
3591454--3591512	22	2.7	22	81	5	75	27	23	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3597328--3597357	15	2.0	15	93	0	51	40	10	0	50	1.36
3598534--3598589	24	2.3	24	100	0	112	37	16	17	28	1.91
3600718--3600826	54	2.0	54	98	0	209	44	8	23	23	1.80
3602123--3602226	30	3.4	30	82	1	100	59	11	12	16	1.61
3602751--3602778	2	14.0	2	100	0	56	50	0	50	0	1.00
3603675--3603717	3	14.3	3	100	0	86	67	0	0	32	0.91
3603986--3604291	131	2.3	134	84	6	399	25	16	32	25	1.96
3604315--3604344	15	2.0	15	93	0	51	30	20	30	20	1.97
3606083--3606140	18	3.0	19	80	14	82	50	10	12	27	1.72
3606114--3606167	28	1.9	28	100	0	108	42	12	11	33	1.79
3607262--3607310	20	2.5	20	100	0	98	32	10	4	53	1.54
3609332--3609371	21	1.9	21	94	0	71	22	17	30	30	1.97
3610154--3610207	29	1.9	29	88	7	85	3	11	3	81	0.95
3610160--3610209	16	3.4	14	81	13	57	4	10	4	82	0.94
3610150--3610211	12	5.4	11	75	13	54	3	12	3	80	0.95
3610153--3610213	13	4.7	13	75	20	56	3	13	3	80	0.96
3613895--3613987	30	3.1	30	90	0	141	60	12	11	15	1.60
3613904--3614011	30	3.7	28	79	10	101	59	12	12	15	1.62
3615479--3615523	3	15.0	3	100	0	90	66	0	0	33	0.92
3619168--3619208	20	1.9	23	85	14	61	39	21	17	21	1.93
3625577--3625609	17	1.9	17	88	11	50	63	0	3	33	1.10
3633016--3633070	24	2.3	24	87	0	74	32	14	12	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3634649--3635247	31	19.3	31	90	0	858	47	23	4	25	1.69
3635484--3635691	6	35.7	6	72	7	106	8	3	40	47	1.51
3635532--3635564	13	2.6	13	90	4	50	6	0	42	51	1.26
3635614--3635652	16	2.4	16	95	0	69	7	0	43	48	1.31
3635602--3635672	28	2.6	26	84	13	81	7	0	42	50	1.29
3635650--3635706	12	4.8	12	80	0	51	12	1	45	40	1.52
3635803--3636123	111	2.9	108	87	7	439	38	6	24	29	1.81
3636177--3636232	27	2.0	28	82	3	69	62	3	23	10	1.43
3636326--3636462	61	2.2	61	87	2	195	37	9	5	47	1.60
3636554--3636889	16	20.5	16	66	19	140	41	6	8	43	1.60

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16