genome.fa.s7984.2.7.7.80.10.50.1000.36.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  36  of  65  ( 7696 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)
7320996--7321037	21	2.0	21	95	0	75	52	7	9	30	1.61
7332526--7332565	2	20.0	2	100	0	80	0	50	0	50	1.00
7338349--7338664	158	2.0	158	100	0	632	26	27	15	30	1.96
7342193--7342227	19	1.9	19	88	11	56	71	8	5	14	1.29
7346404--7346433	13	2.3	13	94	0	51	20	43	23	13	1.86
7346382--7346425	18	2.4	18	100	0	88	18	52	20	9	1.72
7347266--7347315	18	2.8	18	81	9	57	46	6	16	32	1.71
7348788--7348874	24	3.7	23	84	3	93	20	14	17	47	1.83
7348811--7348879	12	5.8	12	78	10	61	17	14	18	49	1.80
7348812--7348883	24	3.0	24	85	2	101	19	12	18	50	1.78
7351817--7351866	18	2.8	18	81	9	57	46	6	16	32	1.71
7352532--7352599	23	2.9	23	68	10	57	38	23	19	19	1.93
7361145--7361283	36	3.9	36	94	0	242	43	15	15	25	1.86
7365221--7365279	23	2.6	23	83	0	82	33	23	18	23	1.97
7365553--7365626	37	2.0	37	84	2	96	48	4	1	45	1.29
7367523--7367589	29	2.4	30	83	11	81	46	0	0	53	1.00
7368179--7371286	389	8.0	389	91	1	4920	39	9	14	36	1.78
7368178--7371286	777	4.0	778	93	1	5156	39	9	14	36	1.78
7371257--7371320	29	2.2	29	91	8	112	31	4	12	51	1.60
7371903--7371940	16	2.4	16	86	8	51	28	15	10	44	1.80
7372308--7372347	20	2.0	20	100	0	80	50	10	5	35	1.58
7373433--7373488	23	2.4	24	93	3	96	55	8	14	21	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7377953--7378102	58	2.6	58	77	4	151	40	4	8	46	1.55
7378953--7378999	21	2.2	21	100	0	94	27	10	4	57	1.51
7378978--7379127	58	2.6	58	77	4	151	40	4	8	46	1.55
7379218--7379332	39	2.9	39	85	1	158	38	6	12	42	1.69
7379201--7379453	137	1.9	136	83	5	332	36	5	13	44	1.68
7379356--7379542	39	4.8	39	82	2	189	36	4	12	45	1.64
7389428--7389466	11	3.8	11	80	19	57	35	25	20	17	1.95
7389421--7389465	20	2.3	19	92	3	72	33	28	22	15	1.95
7389421--7389465	9	4.6	10	81	13	58	33	28	22	15	1.95
7396641--7396676	11	3.6	10	89	10	56	33	30	22	13	1.93
7403002--7403041	21	1.9	21	94	0	71	20	17	15	47	1.83
7403652--7403698	24	2.0	24	83	8	60	46	4	19	29	1.68
7405881--7406304	184	2.3	189	83	3	547	34	14	11	39	1.82
7412061--7412139	38	2.1	37	86	6	106	37	8	8	44	1.67
7412083--7412156	38	2.0	37	83	2	94	40	8	10	40	1.70
7412998--7413056	14	4.1	15	73	18	54	45	3	10	40	1.54
7412862--7413183	155	2.1	156	83	2	396	39	7	9	43	1.67
7413396--7413436	15	2.7	15	100	0	82	46	0	0	53	1.00
7413396--7413436	8	5.4	8	77	11	50	46	0	0	53	1.00
7419376--7419425	19	2.7	19	80	17	61	62	0	0	38	0.96
7419379--7419428	18	2.7	20	79	14	63	62	0	0	38	0.96
7421811--7422081	136	2.0	135	99	0	533	36	19	2	40	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7426380--7426661	149	1.9	148	98	0	546	39	11	6	42	1.66
7427061--7427116	21	2.7	21	97	0	103	28	25	26	19	1.99
7429256--7429304	18	2.8	18	78	3	55	34	8	26	30	1.86
7429802--7429858	23	2.4	23	82	5	69	50	1	0	47	1.11
7442550--7442579	2	15.0	2	100	0	60	50	0	0	50	1.00
7442948--7443018	18	3.8	18	81	7	97	29	29	22	18	1.97
7444693--7444787	44	2.2	44	98	0	181	24	16	21	37	1.93
7445092--7445186	44	2.2	44	98	0	181	24	16	21	37	1.93
7444622--7445419	399	2.0	399	100	0	1596	30	21	11	35	1.90
7448163--7448231	23	3.0	23	84	0	102	30	26	26	17	1.97
7456054--7456080	2	13.5	2	100	0	54	51	0	0	48	1.00
7456115--7456148	2	17.0	2	100	0	68	50	0	0	50	1.00
7458258--7458305	20	2.4	20	96	0	87	16	33	10	39	1.83
7460358--7460461	21	5.1	20	73	15	70	30	27	10	30	1.90
7460381--7460483	21	5.0	21	74	17	81	33	26	11	29	1.91
7460405--7460482	41	1.9	41	81	5	95	32	26	12	28	1.93
7461361--7461394	12	2.8	12	90	0	50	55	29	0	14	1.40
7463852--7463887	18	2.0	18	94	0	63	58	25	0	16	1.38
7464153--7464191	20	2.0	20	84	0	51	56	20	7	15	1.63
7464211--7464252	20	2.1	20	86	0	57	21	21	19	38	1.94
7465759--7465809	21	2.4	21	90	0	75	25	15	37	21	1.93
7465812--7465863	21	2.5	21	87	0	68	28	13	32	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7465745--7465858	42	2.7	42	72	12	108	26	14	37	21	1.92
7465996--7466029	4	8.5	4	86	0	50	70	2	0	26	1.01
7466261--7466306	21	2.2	21	84	0	56	34	34	10	19	1.87
7466401--7466499	42	2.4	42	79	3	110	19	17	31	32	1.94
7467995--7468072	20	3.9	20	91	0	129	47	20	16	15	1.83
7467988--7468078	40	2.2	41	90	3	148	49	19	14	16	1.79
7468083--7468122	14	2.9	14	92	0	62	10	15	25	50	1.74
7468103--7468141	20	2.0	20	94	0	69	15	10	20	53	1.70
7468632--7468694	21	3.0	21	73	17	67	28	11	30	30	1.91
7468612--7468694	42	2.0	42	85	4	114	27	13	27	31	1.94
7468632--7468695	20	3.1	20	76	14	67	29	10	29	29	1.91
7471002--7471073	36	2.1	34	82	12	85	56	4	1	37	1.27
7477111--7477518	191	2.1	192	82	6	497	44	9	5	40	1.60
7477470--7477527	28	2.1	28	81	12	66	51	8	0	39	1.33
7479884--7479916	12	2.7	13	86	13	52	30	6	21	42	1.77
7482930--7482969	10	4.0	10	84	12	55	32	27	0	40	1.57
7483011--7483051	18	2.3	18	91	4	66	29	4	2	63	1.28
7483113--7483445	111	3.0	111	95	0	612	36	8	10	44	1.69
7489251--7489370	51	2.4	51	80	2	116	22	29	29	19	1.98
7497989--7498041	21	2.6	20	73	8	54	26	22	20	30	1.98
7499221--7499264	20	2.2	20	95	0	79	31	15	29	22	1.95
7507399--7507433	19	1.9	18	88	11	54	40	11	28	20	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7508034--7508059	13	2.0	13	100	0	52	15	0	0	84	0.62
7508567--7508591	11	2.3	11	100	0	50	40	0	0	60	0.97
7509076--7509126	23	2.2	23	82	0	66	50	11	21	15	1.76
7509414--7509472	30	2.1	29	84	9	77	44	5	0	50	1.24
7509580--7509640	22	2.8	21	80	14	70	50	0	0	49	1.00
7510125--7510176	24	2.2	24	82	6	61	67	3	5	23	1.29
7522241--7522274	12	2.8	12	90	0	50	0	38	5	55	1.24
7522487--7522512	6	4.3	6	100	0	52	15	53	0	30	1.42
7525103--7525153	25	2.0	26	84	3	68	41	1	11	45	1.52
7526091--7526169	41	1.9	41	84	0	104	21	15	3	59	1.51
7526367--7526395	14	2.1	14	100	0	58	55	0	0	44	0.99
7530575--7530827	132	1.9	132	90	1	400	32	15	20	31	1.94
7533451--7533768	103	3.0	103	89	3	465	20	16	14	49	1.80
7537210--7537315	23	4.7	23	86	1	124	33	24	10	31	1.89
7537421--7537462	20	2.1	20	86	0	57	64	19	4	11	1.44
7539477--7539539	23	2.7	23	90	0	99	15	26	26	30	1.96
7539765--7540248	236	2.1	236	96	0	896	30	14	21	33	1.93
7547733--7547793	23	2.7	23	84	0	86	19	26	26	27	1.99
7550459--7550532	29	2.5	30	77	2	87	12	8	37	41	1.72
7550490--7550559	18	3.9	18	79	3	79	11	8	37	42	1.72
7550923--7550994	13	5.3	13	69	9	54	41	5	6	45	1.54
7550859--7551027	72	2.4	72	78	8	168	37	4	9	48	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7551188--7551408	20	10.9	20	74	12	130	47	4	4	43	1.44
7551188--7551243	22	2.7	21	86	5	69	46	3	3	46	1.37
7551306--7551447	2	70.0	2	66	20	55	47	3	4	45	1.39
7551298--7551447	9	15.8	9	67	22	58	47	4	4	44	1.40
7551350--7551447	11	9.3	11	69	12	62	42	4	5	47	1.44
7552291--7552341	21	2.5	20	81	9	59	31	11	29	27	1.92
7556408--7556448	21	2.0	20	86	9	57	31	24	19	24	1.98
7571311--7571520	103	2.0	103	85	1	278	28	11	22	36	1.90
7571541--7571607	23	2.9	23	82	8	82	22	22	25	29	1.99
7571718--7572298	194	3.0	194	96	0	1090	39	5	21	34	1.76

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