genome.fa.s7960.2.7.7.80.10.50.1000.20.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  20  of  39  ( 4646 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)
3969493--3969548	20	2.8	20	88	0	76	35	23	17	23	1.95
3969868--3969947	22	3.6	22	86	0	115	21	18	41	18	1.91
3970089--3970194	20	5.2	20	79	6	124	24	20	26	28	1.99
3970089--3970215	61	2.1	61	91	2	211	22	21	25	29	1.99
3970211--3970256	20	2.3	20	92	0	74	28	19	15	36	1.92
3970330--3970376	19	2.4	19	82	3	58	25	14	29	29	1.95
3970342--3970378	19	1.9	19	94	0	65	21	16	29	32	1.95
3970623--3970660	11	3.5	11	92	7	60	10	7	0	81	0.87
3970631--3970753	18	6.6	17	70	25	56	17	3	3	76	1.05
3970625--3970720	4	23.8	4	72	19	58	18	3	2	76	1.03
3970625--3970720	13	7.9	12	76	14	58	18	3	2	76	1.03
3985103--3985142	21	1.9	21	89	0	62	42	17	40	0	1.49
3985510--3985595	43	2.0	41	82	6	100	36	20	10	32	1.87
3985584--3985775	86	2.2	86	79	5	201	36	25	17	20	1.94
3985654--3985775	43	2.8	43	97	0	226	36	23	20	19	1.95
3991738--3991823	38	2.3	38	85	4	111	23	16	15	45	1.85
3992076--3992127	23	2.2	24	86	3	70	53	9	7	28	1.61
3992900--3992981	15	5.5	15	85	2	112	39	7	18	35	1.78
3992900--3992981	30	2.8	30	92	1	130	39	7	18	35	1.78
3992895--3992981	45	2.0	44	90	2	138	41	6	18	33	1.77
3992964--3993013	20	2.5	20	100	0	100	40	10	16	34	1.81
3993180--3993245	28	2.3	27	82	12	78	51	1	1	45	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3993239--3993350	23	4.7	23	71	24	65	48	0	0	50	1.13
3993263--3993340	31	2.5	31	83	12	97	50	0	1	48	1.09
3993292--3993364	30	2.4	31	84	8	89	52	0	0	47	1.00
3993194--3993366	53	3.2	52	75	14	165	49	1	0	48	1.12
3993543--3993659	42	2.8	42	97	0	216	45	18	20	15	1.86
3998071--3998599	54	9.8	54	89	2	731	25	17	22	34	1.96
3998071--3998602	269	2.0	270	89	0	814	25	17	22	34	1.96
3999324--3999365	22	1.9	22	90	0	66	73	7	7	11	1.23
3999348--3999377	12	2.4	13	94	5	53	90	3	6	0	0.56
4000687--4000730	2	22.0	2	95	0	79	47	0	2	50	1.13
4007471--4007573	22	4.8	20	76	22	95	73	0	18	7	1.06
4007536--4007577	6	6.8	6	84	15	59	80	0	16	2	0.81
4007514--4007577	12	4.9	13	77	17	62	78	0	17	4	0.92
4007514--4007585	10	6.9	10	72	23	51	76	0	18	5	0.97
4007929--4007981	27	2.0	27	96	0	97	32	24	16	26	1.97
4008886--4008971	37	2.3	36	90	4	136	45	18	17	18	1.86
4008970--4009706	55	13.6	55	78	8	651	31	17	21	29	1.96
4009617--4009787	55	3.1	55	87	4	238	31	21	18	29	1.96
4011413--4011455	2	21.5	2	86	9	61	44	4	0	51	1.22
4013424--4013450	2	13.5	2	100	0	54	51	0	0	48	1.00
4014816--4014994	21	8.6	21	75	11	172	20	20	23	35	1.96
4014841--4015022	42	4.4	42	94	1	314	21	20	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4014862--4015011	21	7.2	20	71	16	119	21	20	20	37	1.95
4015883--4016237	42	8.5	42	91	1	574	36	25	18	20	1.94
4017379--4017421	17	2.5	17	100	0	86	16	48	23	11	1.78
4018817--4018864	25	2.0	24	87	4	69	25	4	16	54	1.60
4020897--4020962	32	2.1	32	100	0	132	34	18	15	31	1.92
4023429--4023549	42	2.9	42	92	2	199	37	8	19	35	1.81
4023865--4024163	84	3.5	84	91	5	494	38	24	6	31	1.79
4024263--4024319	23	2.5	23	97	0	105	40	7	15	36	1.75
4030230--4030259	4	7.5	4	100	0	60	50	23	0	26	1.50
4030698--4030767	30	2.3	31	80	2	79	34	25	17	22	1.96
4033140--4033169	2	15.0	2	92	0	51	46	0	0	53	1.00
4036424--4036580	64	2.5	63	80	10	185	26	18	19	36	1.94
4042805--4042885	28	3.0	27	85	8	85	19	19	16	44	1.87
4042817--4042885	28	2.5	27	90	9	113	17	21	17	43	1.88
4042804--4042895	28	3.4	28	82	8	84	22	19	14	43	1.87
4044678--4044750	30	2.4	30	90	0	119	30	26	19	24	1.98
4044736--4044800	31	2.1	31	82	0	76	35	23	16	24	1.95
4046088--4046125	12	3.0	13	81	18	53	68	0	31	0	0.90
4046097--4046126	15	2.1	14	93	6	51	73	0	26	0	0.84
4049369--4049481	60	1.9	60	83	3	147	23	21	26	28	1.99
4050381--4050409	15	1.9	15	100	0	58	62	0	0	37	0.96
4060088--4060149	25	2.5	25	87	10	99	29	16	9	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4063448--4063499	21	2.5	21	87	0	77	19	25	21	34	1.96
4063509--4063582	20	3.7	20	83	0	94	27	24	22	25	2.00
4064149--4064215	20	3.5	20	81	6	84	11	14	23	49	1.77
4065880--4065933	24	2.3	23	90	6	90	38	20	18	22	1.93
4066719--4066786	20	3.4	20	87	0	91	26	20	25	27	1.99
4066770--4066845	20	3.8	20	98	0	143	26	21	15	36	1.93
4066755--4066845	40	2.3	40	90	3	139	24	20	18	36	1.95
4075536--4075711	60	2.9	58	77	6	147	32	21	4	41	1.73
4075822--4075969	59	2.5	58	81	8	165	36	3	27	33	1.73
4078046--4078113	30	2.3	31	89	5	104	27	23	11	36	1.90
4089439--4089489	26	2.0	26	88	0	75	35	13	9	41	1.78
4091050--4091345	148	2.0	148	95	1	540	29	25	6	38	1.81
4091466--4091557	29	3.1	29	68	17	80	38	4	23	33	1.75
4091465--4091629	60	2.8	60	86	2	217	41	5	21	31	1.75
4092557--4092590	16	2.2	15	89	5	50	41	0	0	58	0.98
4098933--4099437	127	3.9	130	79	11	537	25	17	22	34	1.96
4098912--4099465	258	2.1	262	81	11	646	25	17	22	34	1.96
4099386--4099534	52	2.8	53	84	7	196	26	16	24	32	1.96
4100559--4100589	10	3.0	10	90	9	53	3	9	0	87	0.66
4112022--4112062	3	13.7	3	100	0	82	65	0	0	34	0.93
4119821--4119864	19	2.3	19	84	0	61	63	0	0	36	0.95
4127252--4127316	19	3.2	19	70	12	58	35	23	16	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4127341--4127387	21	2.2	21	100	0	94	19	19	34	27	1.96
4132139--4132215	36	2.1	36	80	4	84	15	22	35	27	1.94
4132403--4132538	27	5.1	27	95	0	238	36	33	15	15	1.89
4137388--4137450	32	2.0	32	93	0	108	17	30	28	23	1.97
4138701--4138730	3	10.0	3	100	0	60	33	0	66	0	0.92
4144225--4144260	2	18.0	2	100	0	72	50	0	0	50	1.00
4149398--4149447	13	3.9	13	75	10	50	54	0	2	44	1.11
4149399--4149457	7	7.8	8	78	12	54	52	0	1	45	1.10
4163583--4163655	7	11.8	6	79	15	62	78	2	4	15	1.02
4163583--4163655	13	5.9	12	74	20	62	78	2	4	15	1.02
4163583--4163626	20	2.2	20	84	15	56	77	2	2	18	0.98
4163590--4163656	16	4.3	14	77	17	62	79	1	4	14	0.97
4163777--4163857	36	2.2	37	76	10	87	62	0	6	30	1.19
4171936--4171984	21	2.3	21	82	6	64	42	8	28	20	1.80
4173581--4173682	30	3.5	30	71	16	97	40	3	7	48	1.51
4175811--4175874	22	2.9	21	82	13	67	28	4	20	46	1.70
4180786--4180831	19	2.5	19	89	3	67	76	2	2	19	1.00
4180933--4180967	3	11.7	3	100	0	70	68	0	0	31	0.90
4187274--4187314	21	2.0	21	90	9	66	73	4	0	21	1.02
4187384--4187442	12	5.0	12	71	19	52	49	3	0	47	1.18
4187336--4187817	35	12.8	35	76	13	261	45	6	2	45	1.44
4187631--4187655	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4188326--4188657	173	1.9	169	85	3	459	24	19	21	34	1.97
4188319--4188695	173	2.2	169	82	2	432	24	18	21	35	1.96
4188629--4188929	86	3.5	86	82	4	347	24	17	23	34	1.96
4188712--4188929	87	2.5	87	87	1	269	22	17	24	35	1.95
4188934--4189399	84	5.6	84	85	3	634	22	19	24	33	1.97
4188934--4189393	167	2.8	167	89	1	697	23	19	24	32	1.97
4190149--4190295	65	2.3	64	82	3	170	30	21	18	29	1.97
4192189--4192228	21	1.9	21	90	10	64	55	5	7	32	1.50
4194210--4194289	23	3.6	22	71	6	72	27	25	22	25	2.00
4196211--4196290	25	3.1	26	73	12	67	22	0	20	57	1.41

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