genome.fa.s9639.2.7.7.80.10.50.1000.32.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  32  of  62  ( 7398 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)
6886297--6886340	20	2.2	20	83	0	52	15	13	18	52	1.75
6888204--6888304	20	5.3	20	73	13	79	39	17	19	22	1.92
6888335--6888493	20	8.6	20	76	17	130	18	18	22	40	1.92
6888360--6888494	33	3.8	34	78	11	121	17	17	22	42	1.88
6888974--6889054	21	3.9	21	74	6	74	22	32	22	23	1.98
6890415--6890450	14	2.6	14	90	0	54	30	0	22	47	1.52
6890552--6890632	33	2.4	33	85	2	108	40	20	24	13	1.89
6890636--6890723	19	4.8	19	74	16	96	15	21	15	46	1.83
6890636--6890756	52	2.3	52	84	2	161	15	22	18	43	1.87
6890728--6890816	20	4.4	20	80	2	99	19	21	22	37	1.95
6893229--6893282	24	2.2	24	90	0	81	40	18	18	22	1.91
6894133--6894229	20	4.8	20	74	14	83	22	21	20	35	1.96
6894143--6894229	41	2.2	40	89	2	129	21	20	20	36	1.95
6894226--6894292	21	3.2	21	93	0	107	35	17	28	17	1.93
6895919--6896133	6	35.7	6	99	0	421	66	0	0	33	0.92
6896204--6896245	21	2.0	22	86	13	61	76	2	4	16	1.07
6896474--6896532	31	1.9	31	82	6	75	64	6	3	25	1.34
6899008--6899135	49	2.6	49	79	7	118	23	4	20	51	1.66
6915302--6915425	30	4.0	29	80	12	122	35	20	16	26	1.95
6915302--6915407	32	3.4	31	83	6	126	33	22	16	27	1.96
6915869--6915898	15	1.9	16	93	6	53	46	16	10	26	1.78
6916277--6916315	19	2.1	19	85	0	51	28	17	17	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6919827--6919909	43	2.0	42	85	2	112	36	4	8	50	1.54
6922068--6922442	197	1.9	199	83	3	497	48	9	4	37	1.56
6922406--6922469	32	2.0	32	85	8	87	53	9	6	31	1.58
6934873--6934912	19	2.1	19	85	0	53	45	10	0	45	1.37
6934637--6935480	419	2.0	416	87	3	1230	42	8	10	38	1.69
6936831--6936872	20	2.1	20	90	0	66	28	33	11	26	1.92
6943561--6943614	23	2.4	23	87	3	83	14	33	20	31	1.93
6956677--6956742	29	2.2	29	86	7	89	48	6	15	30	1.69
6959820--6959868	19	2.5	20	75	18	57	61	0	22	16	1.34
6959865--6959889	7	3.6	7	100	0	50	44	0	28	28	1.55
6963827--6963932	45	2.4	44	90	4	160	35	8	24	31	1.85
6969871--6969916	24	1.9	24	86	0	65	32	26	21	19	1.97
6969907--6969966	23	2.6	23	81	0	75	36	26	16	20	1.93
6970095--6970135	16	2.7	15	85	14	57	43	19	7	29	1.78
6976941--6976986	24	1.9	24	86	0	65	34	23	21	19	1.96
6976990--6977036	23	2.0	23	83	0	58	34	25	12	27	1.92
6987898--6987945	22	2.2	21	85	3	60	64	0	0	35	0.94
6988377--6988537	54	3.0	54	88	0	232	30	13	19	36	1.91
7010764--7010826	6	10.2	6	77	17	58	0	69	0	30	0.88
7010772--7010839	12	6.0	12	79	17	74	0	73	0	26	0.83
7010776--7010842	14	4.9	14	76	20	52	0	73	0	26	0.84
7010772--7010834	4	16.5	4	75	21	64	0	73	0	26	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7010772--7010890	20	5.9	20	72	15	86	2	72	2	22	1.09
7010775--7010845	23	3.1	23	75	20	69	0	73	0	26	0.84
7011911--7011950	15	2.8	14	85	7	53	2	15	2	80	0.93
7011911--7011950	7	5.6	7	85	5	53	2	15	2	80	0.93
7013351--7013380	2	15.0	2	100	0	60	50	0	0	50	1.00
7016486--7016560	40	1.9	38	84	7	98	33	13	22	30	1.92
7018648--7019021	185	2.0	188	98	1	727	44	6	13	34	1.71
7022050--7022090	16	2.6	16	96	0	73	31	34	0	34	1.58
7028652--7028885	54	4.3	54	87	0	306	37	19	14	29	1.90
7028846--7028918	36	2.0	36	83	0	92	36	21	15	26	1.93
7032553--7032581	15	1.9	15	100	0	58	27	17	27	27	1.97
7032537--7032632	48	2.0	48	100	0	192	22	20	20	35	1.96
7032601--7032634	15	2.3	15	94	0	59	26	14	32	26	1.95
7033740--7033766	9	3.0	9	100	0	54	22	0	66	11	1.22
7034628--7034903	54	5.1	54	87	2	356	36	18	14	30	1.91
7034671--7034903	109	2.1	108	90	2	360	37	18	13	30	1.90
7035354--7035409	21	2.7	21	100	0	112	37	19	14	28	1.91
7039090--7039407	158	2.0	157	99	0	627	25	15	21	37	1.93
7041669--7041749	40	2.0	40	100	0	162	20	7	44	27	1.78
7046045--7046099	27	2.0	28	96	3	103	52	18	0	29	1.45
7047053--7047452	41	9.9	41	84	3	432	30	18	18	32	1.95
7047051--7047452	121	3.3	122	81	3	443	30	18	18	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7047051--7047448	162	2.5	162	84	2	494	30	18	18	32	1.95
7048410--7048435	10	2.6	10	100	0	52	11	0	15	73	1.11
7050220--7050297	38	2.1	38	90	0	120	50	0	0	50	1.00
7050227--7050297	32	2.4	32	86	11	98	50	0	0	49	1.00
7050703--7050970	43	6.2	43	85	2	252	40	19	17	23	1.91
7050707--7050970	86	3.1	86	84	3	325	40	18	17	23	1.91
7050707--7050970	129	2.0	129	85	4	354	40	18	17	23	1.91
7051796--7051848	25	2.3	22	73	17	54	52	0	5	41	1.25
7051806--7051876	15	3.9	19	68	25	55	50	0	2	46	1.16
7052859--7052916	29	2.0	29	96	0	107	32	24	18	24	1.97
7063257--7063307	22	2.3	22	93	6	86	11	29	11	47	1.76
7065331--7065358	14	2.0	14	100	0	56	42	0	7	50	1.30
7068520--7068571	20	2.6	20	87	0	77	30	19	17	32	1.95
7074469--7074658	29	6.5	29	76	10	113	20	11	8	58	1.59
7074595--7074682	29	2.9	30	83	8	117	19	12	6	61	1.53
7078535--7078611	25	3.2	25	90	3	122	74	7	16	1	1.12
7078539--7078608	15	4.9	15	71	23	53	71	8	18	1	1.19
7078559--7078657	17	6.1	16	76	12	80	74	8	15	2	1.13
7078546--7078657	18	6.2	18	70	9	75	74	8	16	1	1.14
7078576--7078660	33	2.6	33	76	14	95	72	8	17	1	1.15
7079504--7079560	23	2.4	23	80	8	62	36	12	3	47	1.58
7079680--7079745	33	2.0	33	87	0	96	34	15	21	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7079842--7079954	37	3.1	36	78	6	129	31	14	13	40	1.84
7080017--7080153	36	3.9	36	80	3	127	36	18	11	32	1.88
7080709--7080789	28	2.8	28	81	12	92	25	12	13	48	1.78
7080724--7080805	28	2.9	28	81	3	85	24	12	14	48	1.78
7081020--7081127	43	2.6	42	74	11	107	25	32	17	24	1.97
7081281--7081309	3	10.0	3	92	7	51	31	0	0	68	0.89
7082752--7082940	59	3.2	58	73	7	150	19	12	8	59	1.59
7082775--7082960	30	6.4	29	77	10	132	17	11	9	61	1.56
7083571--7084343	386	2.0	386	99	0	1528	31	17	13	38	1.88
7085310--7085334	12	2.1	12	100	0	50	40	8	24	28	1.83
7086772--7086825	22	2.4	22	84	12	65	61	1	0	37	1.07
7089115--7089153	20	2.0	19	90	5	60	30	12	28	28	1.93
7091096--7091134	21	1.9	20	89	5	60	66	20	0	12	1.24
7091851--7091889	20	2.0	20	89	0	60	33	23	10	33	1.88
7094943--7094971	15	2.0	15	93	6	51	75	3	20	0	0.94
7106820--7106930	23	4.9	23	73	10	86	31	21	19	27	1.98
7109064--7109102	20	2.0	20	89	0	60	33	20	10	35	1.86
7109937--7109961	10	2.5	10	100	0	50	32	0	8	60	1.26
7114003--7114227	111	2.0	111	93	1	380	30	12	11	46	1.76
7114663--7115477	111	7.3	111	90	1	1172	31	12	11	44	1.77
7115947--7116004	23	2.5	23	91	0	98	36	15	10	37	1.82
7116057--7116101	23	2.0	23	86	0	63	37	15	11	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7119281--7119377	32	3.0	31	76	5	104	27	19	13	39	1.89
7119464--7119488	13	1.9	13	100	0	50	44	8	8	40	1.63
7122595--7122635	18	2.3	18	86	0	55	48	19	31	0	1.49
7123279--7123310	16	2.0	16	93	0	55	28	12	9	50	1.71
7126501--7126541	18	2.3	18	86	0	55	48	19	31	0	1.49
7127190--7127221	16	2.0	16	100	0	64	31	12	6	50	1.65
7129484--7129524	21	2.0	20	85	4	55	26	29	14	29	1.95
7136073--7136129	24	2.4	24	96	0	105	19	33	19	28	1.96
7138934--7138979	24	1.9	24	90	0	74	26	19	6	47	1.73
7140913--7141069	45	3.6	44	86	5	203	33	15	22	28	1.94

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62