genome.fa.s8242.2.7.7.80.10.50.1000.30.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  30  of  73  ( 8740 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)
7182251--7183247	401	2.5	401	89	3	1473	31	14	16	37	1.89
7183655--7183975	160	2.0	161	99	0	635	29	24	8	37	1.85
7184897--7184943	20	2.3	20	75	7	51	17	21	12	48	1.79
7184871--7185520	182	3.6	182	87	1	901	27	17	12	42	1.85
7195406--7195431	13	2.0	13	100	0	52	76	0	15	7	0.99
7198301--7198345	22	2.3	19	85	14	56	44	22	20	13	1.85
7198741--7198802	32	1.9	32	96	0	115	32	6	30	30	1.83
7200917--7201008	44	2.1	44	93	0	157	31	20	17	30	1.96
7204461--7204542	38	2.2	38	97	0	155	26	40	21	10	1.87
7205482--7205539	30	1.9	30	100	0	116	17	10	8	63	1.49
7205764--7205801	16	2.3	17	81	4	51	26	5	7	60	1.46
7208509--7208562	20	2.6	21	82	5	65	29	22	16	31	1.96
7208756--7208788	16	2.1	16	100	0	66	39	54	0	6	1.25
7210780--7210804	2	12.5	2	100	0	50	48	0	0	52	1.00
7211025--7211078	23	2.3	23	93	0	90	35	9	7	48	1.63
7211021--7211081	18	3.1	18	75	20	59	34	8	6	50	1.58
7211371--7211469	44	2.2	44	89	0	144	33	20	15	31	1.93
7217346--7217451	42	2.6	42	73	11	103	30	16	20	33	1.94
7217642--7217692	21	2.4	21	87	6	68	27	11	27	33	1.92
7217652--7217695	21	2.1	21	95	0	79	27	11	31	29	1.91
7217421--7218299	254	3.6	251	81	10	893	34	15	17	33	1.91
7217770--7218299	227	2.3	228	90	2	801	35	15	15	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7218178--7218534	193	1.8	194	86	3	522	35	13	14	36	1.85
7217686--7219001	655	2.0	654	84	2	1714	33	15	16	34	1.90
7218372--7219435	232	4.6	231	84	2	1368	32	14	17	35	1.90
7219934--7220337	55	7.4	54	84	2	450	28	22	16	32	1.95
7219958--7220334	110	3.4	110	84	1	504	27	22	16	33	1.96
7219942--7220338	165	2.4	165	87	0	569	27	22	16	32	1.96
7226174--7226552	55	6.9	55	82	3	447	27	21	18	32	1.97
7226158--7226552	110	3.6	110	84	2	515	27	21	18	32	1.97
7227207--7227307	42	2.4	42	81	1	123	25	21	20	31	1.98
7227439--7227518	42	1.9	42	82	5	99	25	22	22	30	1.99
7227661--7227697	3	12.7	3	88	5	58	29	2	0	67	1.04
7227777--7227816	20	2.0	20	90	0	62	55	32	5	7	1.50
7228171--7228255	26	3.1	25	76	17	71	75	3	18	2	1.06
7228171--7228255	29	3.1	28	75	11	77	75	3	18	2	1.06
7231097--7231134	20	1.9	20	94	0	67	23	13	21	42	1.88
7238765--7238941	89	2.0	90	90	1	284	37	11	6	44	1.65
7245766--7245949	100	1.8	100	100	0	368	35	15	14	34	1.88
7265558--7265867	45	6.9	45	86	2	399	31	19	9	39	1.83
7265558--7265867	134	2.3	135	84	3	419	31	19	9	39	1.83
7266270--7266331	20	3.0	20	76	6	63	25	33	11	29	1.91
7266308--7266494	95	2.0	95	84	2	250	26	22	14	35	1.93
7266459--7266511	20	2.6	21	82	5	65	30	20	13	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7277715--7278018	45	6.8	45	84	0	331	32	19	8	39	1.81
7278532--7278583	22	2.4	23	81	12	65	23	34	11	30	1.90
7278468--7278650	95	1.9	93	83	6	235	25	22	16	35	1.95
7278644--7278695	21	2.5	21	78	3	61	30	19	11	38	1.87
7283537--7283594	30	1.9	30	89	0	89	58	5	13	22	1.55
7283548--7283612	25	2.6	25	80	7	78	64	4	13	16	1.44
7283762--7283858	49	2.0	49	91	0	158	45	13	13	27	1.81
7286206--7286311	53	2.0	53	100	0	212	28	5	16	49	1.69
7286666--7286706	16	2.6	16	88	3	57	34	21	7	36	1.82
7299559--7299631	36	2.0	36	100	0	146	21	27	5	45	1.74
7300536--7300569	17	2.0	17	88	0	50	44	35	5	14	1.70
7302894--7302963	31	2.3	31	87	0	95	22	12	14	50	1.77
7324616--7324838	110	2.0	110	95	2	403	34	9	18	36	1.84
7330196--7330235	18	2.2	18	86	0	53	37	5	57	0	1.21
7332986--7333032	22	2.1	23	84	4	60	38	27	12	21	1.90
7335494--7335611	39	3.0	39	93	0	191	29	11	11	46	1.76
7342958--7343138	26	6.8	26	92	5	281	40	22	7	28	1.82
7343048--7343102	18	3.4	18	67	27	59	41	23	7	27	1.80
7342963--7343128	56	3.0	56	92	3	268	40	22	8	27	1.83
7343905--7343955	23	2.2	23	78	0	57	41	5	5	47	1.52
7343949--7344009	18	3.4	18	77	8	70	40	1	6	50	1.38
7343987--7344041	28	1.9	29	85	10	78	47	3	3	45	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7357420--7357471	19	2.7	20	80	11	63	71	0	9	19	1.13
7357551--7357591	2	20.5	2	94	0	73	53	0	0	46	1.00
7357549--7357594	8	5.6	8	92	2	56	56	0	0	43	0.99
7357905--7357948	21	2.0	22	82	4	54	2	18	22	56	1.52
7358001--7358098	37	2.6	37	86	0	124	30	13	14	41	1.84
7358836--7359986	106	10.9	106	87	1	1559	23	17	24	33	1.96
7360373--7360409	18	2.0	19	94	5	67	43	32	5	18	1.73
7360825--7360901	22	3.5	22	94	0	136	20	14	27	37	1.91
7361515--7361603	9	9.9	9	74	13	85	2	12	4	80	0.94
7361537--7361599	17	3.7	16	87	10	81	0	14	3	82	0.79
7361537--7361599	25	2.4	25	87	10	83	0	14	3	82	0.79
7361537--7361603	26	2.6	25	84	11	91	0	14	2	82	0.79
7361913--7361945	14	2.4	14	94	0	57	33	6	18	42	1.75
7366212--7366295	39	2.1	40	81	14	95	67	1	8	22	1.24
7366236--7366291	18	3.1	18	72	12	51	66	1	7	25	1.27
7366338--7366377	2	20.5	2	92	5	64	55	0	0	45	0.99
7366783--7366887	37	2.8	37	85	0	138	30	13	15	40	1.85
7374169--7374214	24	1.9	24	86	0	65	26	21	26	26	2.00
7394063--7394103	22	1.9	21	95	5	73	41	34	4	19	1.73
7394408--7394471	17	3.6	17	73	22	60	78	3	12	6	1.06
7397274--7397386	55	2.1	55	100	0	226	27	15	19	37	1.92
7404158--7404195	19	2.0	20	89	5	60	42	10	13	34	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7409117--7409287	85	2.0	85	100	0	342	36	16	15	32	1.90
7414106--7414169	27	2.4	27	97	0	119	25	4	43	26	1.74
7418371--7418436	34	1.9	34	100	0	132	30	3	19	46	1.65
7418471--7418581	36	3.1	36	78	0	114	54	15	8	22	1.67
7425457--7425501	21	2.1	21	91	0	72	40	15	15	28	1.88
7425530--7425582	21	2.6	21	79	11	56	45	20	11	22	1.83
7433936--7434448	256	2.0	256	98	0	990	32	15	20	31	1.94
7435187--7435211	2	12.5	2	100	0	50	0	48	0	52	1.00
7440080--7440146	27	2.5	27	97	0	125	41	25	22	10	1.85
7441289--7441350	29	2.1	29	82	5	72	50	6	19	24	1.71
7462322--7462381	24	2.4	25	88	2	86	26	20	23	30	1.98
7462322--7462390	24	2.9	24	82	4	77	24	20	24	30	1.99
7462981--7463013	17	2.0	17	88	5	50	45	6	18	30	1.73
7471213--7471242	16	1.9	15	93	6	51	83	0	0	16	0.65
7477084--7477113	15	1.9	16	93	6	53	46	0	16	36	1.47
7479702--7479743	14	2.8	15	78	10	50	71	7	4	16	1.26
7479741--7479819	38	2.1	38	83	9	99	67	5	5	22	1.31
7481322--7481368	20	2.3	20	92	0	76	27	14	19	38	1.91
7481755--7481789	15	2.3	15	90	0	52	25	17	34	22	1.96
7481763--7481792	15	2.0	15	100	0	60	20	20	40	20	1.92
7488230--7488326	35	2.7	36	80	4	115	42	9	15	32	1.79
7488230--7488350	37	3.3	36	76	10	120	42	7	15	33	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7491506--7491553	22	2.3	20	79	10	51	62	4	8	25	1.41
7493991--7494033	21	2.3	19	84	15	54	58	11	0	30	1.34
7502166--7502217	20	2.6	20	81	6	61	30	23	15	30	1.95
7503537--7503566	2	15.0	2	100	0	60	50	0	0	50	1.00
7506416--7506489	26	2.8	26	87	0	112	36	20	21	21	1.95
7515651--7515679	12	2.3	13	94	5	51	37	0	0	62	0.96
7515595--7515752	85	1.9	83	85	7	221	32	1	7	58	1.34
7515595--7515774	85	2.1	84	82	9	215	31	2	8	57	1.40
7516244--7516286	18	2.4	18	88	7	61	27	2	0	69	1.00
7516335--7516386	15	3.4	15	78	10	52	15	5	1	76	1.05

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   63   64   
          65   66   67   68   69   70   71   72   73