genome.fa.s9587.2.7.7.80.10.50.1000.15.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  15  of  29  ( 3457 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)
3282140--3282180	21	2.0	21	85	0	55	41	17	0	41	1.49
3283826--3283857	16	2.0	16	100	0	64	56	25	12	6	1.59
3283923--3283977	16	3.4	16	92	0	92	58	21	10	9	1.60
3285197--3285263	33	2.2	29	78	19	75	29	17	26	25	1.98
3285489--3285543	24	2.3	24	90	0	83	56	20	9	14	1.65
3285489--3285550	24	2.6	24	78	14	74	53	20	11	14	1.72
3285836--3285898	26	2.5	26	80	10	67	31	6	0	61	1.21
3291593--3291638	18	2.6	18	93	3	76	65	23	10	0	1.24
3293711--3294047	54	6.2	54	90	0	476	34	18	17	29	1.94
3293797--3293882	27	3.2	27	65	23	72	37	17	15	30	1.90
3294367--3294406	20	2.0	20	85	0	53	27	27	10	35	1.89
3294389--3294466	22	3.6	22	67	19	56	28	23	12	35	1.91
3300446--3300494	11	4.8	11	78	16	52	0	12	12	75	1.05
3300447--3300484	19	2.0	19	89	0	58	0	7	13	78	0.94
3300447--3300510	29	2.2	28	83	8	85	0	7	12	79	0.92
3300458--3300518	8	7.0	8	79	17	61	0	4	11	83	0.79
3300448--3300491	19	2.2	20	84	4	54	0	11	11	77	1.00
3302392--3302467	25	3.0	25	77	12	84	60	6	14	18	1.55
3306785--3306826	18	2.3	18	95	0	75	21	4	21	52	1.65
3313122--3313614	186	2.7	184	92	1	833	40	3	9	46	1.53
3314211--3314235	3	8.3	3	100	0	50	0	36	0	64	0.94
3321226--3321265	21	1.9	21	94	0	71	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)
3331898--3331935	20	1.9	20	94	0	67	34	34	21	10	1.87
3333648--3333682	18	2.1	17	89	10	54	34	0	42	22	1.54
3338143--3338225	33	2.5	32	84	11	105	21	0	14	63	1.29
3338146--3338212	20	3.7	20	70	29	69	22	0	14	62	1.32
3343592--3343656	30	2.2	29	80	2	76	40	7	18	33	1.79
3344781--3344834	26	2.1	26	92	0	90	61	5	11	22	1.50
3344807--3344847	17	2.4	17	87	0	55	63	2	12	21	1.40
3353763--3353815	21	2.5	21	87	6	72	58	1	33	5	1.32
3353757--3353802	3	15.3	3	82	8	58	65	0	32	2	1.05
3354717--3354891	24	6.7	25	68	25	80	46	1	1	50	1.21
3354796--3354858	23	2.7	23	92	0	108	49	4	0	46	1.23
3354796--3354869	23	3.2	22	88	7	103	47	4	1	47	1.29
3355288--3355328	21	2.0	21	85	0	55	48	2	2	46	1.28
3355296--3355336	21	2.0	21	85	9	57	46	2	2	48	1.28
3357160--3357187	11	2.5	11	100	0	56	32	7	10	50	1.64
3358645--3358680	14	2.6	14	91	4	56	52	2	5	38	1.39
3358654--3358761	57	1.9	57	85	11	150	44	1	4	49	1.34
3358716--3358772	11	5.4	11	75	8	55	52	0	1	45	1.11
3358808--3358882	23	3.2	23	76	1	78	25	14	25	34	1.94
3362966--3363028	31	2.0	32	87	3	92	26	38	17	17	1.92
3376075--3376133	30	2.0	30	93	6	102	35	3	16	44	1.65
3376270--3376367	21	4.7	21	93	1	153	22	25	25	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3376560--3376605	13	3.5	13	93	0	83	52	15	8	23	1.70
3379334--3379388	27	2.0	27	100	0	110	49	3	7	40	1.48
3379774--3379830	21	2.7	21	88	0	87	22	36	17	22	1.94
3379855--3379924	20	3.5	20	74	3	68	22	25	20	31	1.98
3379851--3379906	21	2.8	20	80	2	58	23	25	21	30	1.99
3380045--3380107	34	1.9	34	83	6	85	30	17	26	25	1.97
3382083--3382137	21	2.6	21	97	0	101	12	30	25	30	1.93
3384222--3384316	21	4.4	21	70	18	70	38	13	13	33	1.84
3384877--3384936	21	2.8	21	82	7	59	30	15	15	40	1.87
3385134--3385553	210	2.0	211	98	1	817	25	18	16	38	1.92
3386770--3386817	24	2.0	24	91	0	78	29	20	4	45	1.70
3393170--3393220	23	2.2	24	86	10	70	52	17	11	17	1.73
3394234--3394262	6	4.8	6	100	0	58	51	0	0	48	1.00
3397772--3397800	2	14.5	2	100	0	58	48	0	0	51	1.00
3416900--3416951	21	2.4	22	87	6	70	32	1	1	63	1.16
3416992--3417039	12	4.0	12	75	20	55	62	0	0	37	0.95
3416974--3417044	24	3.0	24	80	12	76	60	0	2	36	1.11
3417433--3417462	14	2.1	14	100	0	60	13	13	26	46	1.80
3417456--3417509	27	2.0	27	89	3	83	33	12	20	33	1.91
3418699--3418837	69	2.0	69	98	0	269	33	22	20	23	1.97
3419070--3419208	35	3.9	36	82	1	156	33	17	25	23	1.96
3419070--3419205	71	1.9	71	86	3	193	33	18	25	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3421191--3421263	37	2.0	36	86	5	103	43	6	23	26	1.78
3423797--3423855	5	11.4	5	77	12	57	74	1	3	20	1.05
3423797--3423862	10	6.2	11	72	12	57	74	1	3	21	1.04
3423798--3423858	31	2.0	31	86	0	86	73	1	3	21	1.06
3423797--3423855	21	2.9	21	82	10	68	74	1	3	20	1.05
3423906--3423948	18	2.4	18	88	0	59	69	0	9	20	1.15
3425019--3425063	4	10.8	4	81	9	54	73	0	6	20	1.05
3433951--3433993	18	2.4	18	88	0	59	72	0	4	23	1.04
3435073--3435124	22	2.4	22	80	6	61	76	1	3	17	1.02
3435152--3435228	34	2.3	30	79	16	73	42	10	3	42	1.57
3447220--3447266	21	2.2	21	84	0	67	42	23	10	23	1.85
3448898--3448933	18	1.9	19	88	5	56	44	2	8	44	1.48
3449139--3449172	13	2.6	14	86	13	54	38	5	8	47	1.59
3450920--3450988	13	5.3	13	76	10	70	40	8	15	34	1.79
3450917--3450968	26	2.0	26	100	0	104	34	7	23	34	1.83
3450920--3450983	26	2.5	26	89	5	94	40	7	17	34	1.78
3451477--3451548	21	3.3	21	68	11	56	26	20	20	31	1.98
3451449--3451548	44	2.3	44	87	3	139	29	21	20	30	1.98
3459310--3459354	15	3.1	15	73	26	51	31	0	2	66	1.04
3459308--3459386	29	2.8	28	77	9	72	41	0	2	55	1.13
3459365--3459422	22	2.6	23	81	10	66	53	0	0	46	1.00
3459367--3459422	21	2.6	22	80	11	71	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3459493--3459521	14	2.0	15	93	6	51	41	6	3	48	1.47
3459495--3459545	13	3.8	13	76	7	50	43	5	1	49	1.38
3467905--3467953	15	3.4	14	88	8	71	2	20	0	77	0.87
3467913--3467956	15	2.9	15	93	6	72	4	20	0	75	0.98
3468288--3468336	24	2.0	25	84	15	66	22	8	2	67	1.28
3468732--3468825	28	3.3	28	82	8	100	41	2	13	42	1.56
3468729--3468973	29	8.5	28	78	5	170	39	4	10	45	1.60
3468805--3468964	87	1.8	87	81	2	196	38	6	8	47	1.58
3468776--3468946	58	2.9	58	82	1	218	36	6	9	47	1.62
3473829--3473902	20	3.7	20	83	7	87	32	24	24	18	1.97
3474068--3474137	30	2.3	30	83	9	81	44	14	5	35	1.69
3480946--3481028	22	3.8	22	74	13	64	22	39	22	14	1.91
3482957--3483008	9	6.4	8	75	20	54	13	0	26	59	1.34
3482960--3483003	17	2.6	17	85	7	63	13	0	29	56	1.38
3484773--3484846	20	3.7	20	83	7	87	32	24	24	18	1.97
3485012--3485081	29	2.3	30	85	9	90	44	15	5	34	1.71
3485023--3485082	30	2.0	30	90	6	95	41	16	8	33	1.78
3486353--3486400	19	2.5	20	82	3	62	29	12	6	52	1.63
3487923--3487980	30	2.0	29	83	10	73	46	15	3	34	1.63
3487923--3487982	29	2.0	30	87	6	86	45	15	5	35	1.68
3488018--3488064	21	2.2	21	96	0	85	36	14	10	38	1.81
3489258--3489415	77	2.0	79	83	7	198	43	3	9	43	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3500493--3500536	18	2.5	18	81	3	54	31	11	11	45	1.76
3500543--3500622	34	2.3	35	80	6	90	30	11	12	46	1.77
3500596--3500666	17	4.1	17	83	5	72	36	12	9	40	1.77
3501880--3501921	9	4.6	9	87	3	57	88	2	9	0	0.61
3501888--3501921	16	2.2	15	89	5	50	88	0	11	0	0.52
3502849--3502894	15	3.1	15	80	0	65	45	0	28	26	1.54
3504082--3504153	17	4.2	17	76	5	56	37	15	8	38	1.77
3506523--3506599	24	3.2	24	78	8	86	38	3	11	45	1.59
3506752--3506915	86	1.9	86	86	2	231	28	17	26	28	1.97
3509316--3509358	13	3.4	13	83	6	52	23	23	2	51	1.60

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