genome.fa.s1129.2.7.7.80.10.50.1000.72.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  72  of  89  ( 10573 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)
17166749--17166815	29	2.3	29	86	0	89	38	1	20	38	1.62
17167893--17167991	45	2.2	45	89	7	148	36	7	23	33	1.82
17172317--17172356	11	3.5	11	93	3	62	55	0	12	32	1.38
17191706--17191785	30	2.7	29	73	9	72	33	15	5	46	1.67
17193313--17193378	25	2.6	26	85	4	89	46	7	6	39	1.57
17196232--17196258	14	1.9	14	100	0	54	14	22	37	25	1.93
17198780--17198819	21	1.9	21	94	0	71	12	27	22	37	1.90
17206379--17206423	23	1.9	23	90	4	72	28	0	0	71	0.87
17211577--17211610	17	2.1	17	88	5	52	58	5	14	20	1.57
17220677--17220750	29	2.4	32	86	6	109	44	4	1	50	1.29
17220677--17220750	2	38.5	2	81	8	91	44	4	1	50	1.29
17220819--17220858	20	2.0	20	85	9	55	35	2	0	62	1.09
17221365--17221695	165	2.0	166	99	0	655	29	21	18	30	1.97
17224704--17224740	2	18.5	2	100	0	74	48	0	0	51	1.00
17224787--17224815	14	2.0	15	93	6	51	62	27	3	6	1.37
17226750--17226829	21	3.7	21	79	5	88	23	25	25	26	2.00
17226754--17226848	42	2.2	42	85	7	120	24	22	25	28	1.99
17232579--17232666	45	2.0	45	86	0	122	26	18	26	29	1.98
17236855--17236886	2	16.0	2	100	0	64	50	0	0	50	1.00
17238137--17238178	22	2.0	21	90	4	66	38	35	2	23	1.68
17239931--17239966	16	2.2	16	100	0	72	30	30	11	27	1.91
17241082--17241147	29	2.2	30	81	2	80	37	4	22	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17242280--17242404	47	2.8	45	83	7	155	39	7	21	32	1.81
17253657--17253707	21	2.4	21	93	0	84	45	7	43	3	1.51
17253691--17253716	12	2.2	12	100	0	52	57	0	42	0	0.98
17257845--17257874	15	2.0	15	93	0	51	40	6	16	36	1.75
17259354--17259398	22	2.0	22	100	0	90	13	33	4	48	1.62
17259822--17259908	43	2.0	43	100	0	174	39	11	13	35	1.81
17261113--17261541	211	2.0	211	97	1	817	31	12	17	38	1.87
17265090--17265483	197	2.0	197	96	0	734	27	10	17	44	1.82
17270935--17271546	54	11.4	54	85	4	771	34	20	16	28	1.94
17279801--17279839	21	1.9	21	84	5	53	30	12	20	35	1.90
17282078--17282130	19	2.9	17	78	15	52	75	7	9	7	1.19
17288045--17288203	47	3.5	47	93	3	254	32	20	8	38	1.83
17295135--17295293	47	3.5	47	90	3	236	32	16	10	40	1.82
17299423--17299504	40	2.0	40	97	0	155	32	26	15	24	1.95
17301762--17301803	21	2.0	21	90	4	68	30	0	28	40	1.57
17302002--17302054	21	2.5	22	79	11	67	37	24	3	33	1.74
17306300--17306325	12	2.2	12	100	0	52	61	0	15	23	1.33
17307211--17307246	17	2.1	17	89	0	54	50	16	16	16	1.79
17308022--17308071	2	25.0	2	100	0	100	50	0	0	50	1.00
17308149--17308185	19	1.9	19	89	10	58	13	8	13	64	1.48
17309099--17309140	23	1.9	23	85	9	61	47	2	0	50	1.14
17309372--17309403	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17309872--17309913	21	2.0	22	85	4	59	26	9	2	61	1.39
17311419--17311454	7	5.1	7	87	12	56	13	16	11	58	1.63
17313673--17313816	72	2.0	72	86	0	198	23	20	19	36	1.95
17313893--17313917	10	2.5	10	100	0	50	92	0	8	0	0.40
17315236--17315473	75	3.2	75	89	1	359	34	15	21	28	1.94
17316800--17317206	73	5.6	73	92	1	672	31	16	12	39	1.86
17319490--17319706	113	1.9	113	84	0	290	35	16	24	23	1.95
17322697--17322779	38	2.2	39	91	2	132	27	10	15	45	1.80
17323516--17323664	22	6.9	22	74	20	111	34	7	2	55	1.42
17323505--17323664	73	2.2	73	81	9	168	35	7	2	55	1.42
17323503--17323652	13	10.9	14	66	27	65	34	7	2	55	1.42
17323683--17323739	2	29.0	2	81	10	64	43	3	0	52	1.18
17323681--17323745	14	4.4	15	77	14	55	41	3	1	53	1.25
17323845--17323890	24	1.9	24	82	8	58	52	4	10	32	1.56
17324186--17324687	6	83.8	6	86	5	235	49	14	0	35	1.51
17324256--17324677	60	7.1	60	88	8	611	49	16	0	33	1.46
17325107--17325213	2	54.0	2	81	5	119	46	5	1	45	1.37
17325659--17327151	2	751.0	2	62	22	187	41	5	3	49	1.43
17325659--17325754	15	6.6	14	77	20	74	53	0	5	41	1.23
17324593--17325770	556	2.1	558	86	5	1663	48	6	10	34	1.64
17325711--17327151	20	72.8	20	67	19	212	40	6	3	50	1.43
17326047--17326099	15	3.4	17	70	17	51	32	9	1	56	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17326118--17326237	23	5.2	22	71	23	63	42	6	0	50	1.28
17326033--17326245	116	1.9	115	82	10	267	39	7	0	52	1.35
17326314--17326378	11	5.9	11	73	20	55	38	4	9	47	1.56
17326613--17326870	35	7.2	35	68	20	99	39	6	2	50	1.44
17326659--17326869	114	1.9	114	80	6	248	39	5	2	52	1.39
17326890--17326949	27	2.1	28	82	11	70	41	5	5	48	1.47
17329216--17329552	171	2.0	171	98	0	656	41	11	18	29	1.85
17329551--17329611	3	20.7	3	96	3	115	34	0	65	0	0.93
17329610--17329639	3	10.0	3	100	0	60	66	0	33	0	0.92
17332032--17332112	29	2.7	29	80	3	81	37	11	11	40	1.76
17335952--17335995	15	2.7	17	80	20	58	36	4	6	52	1.49
17335963--17335995	15	2.3	15	94	5	59	42	3	6	48	1.43
17338120--17338258	62	2.2	62	85	0	179	16	17	20	45	1.86
17339252--17339325	29	2.5	30	91	2	114	18	35	13	32	1.90
17342046--17342076	15	2.1	15	93	0	53	51	0	0	48	1.00
17343020--17343055	16	2.2	16	90	5	54	22	27	25	25	2.00
17343200--17343233	15	2.3	15	100	0	68	41	0	5	52	1.25
17346686--17346740	14	3.7	14	80	7	56	60	1	1	36	1.18
17346835--17346892	24	2.4	25	77	16	59	56	5	0	37	1.21
17346828--17346896	21	2.9	23	79	14	70	50	5	0	43	1.26
17352493--17352565	30	2.4	30	77	4	76	42	8	16	32	1.78
17353575--17353662	24	3.7	24	84	3	115	48	15	15	19	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17353570--17353639	12	5.8	12	74	12	63	51	17	15	15	1.77
17353568--17353676	48	2.3	47	88	6	157	49	15	16	18	1.80
17353568--17353676	24	4.5	25	77	11	111	49	15	16	18	1.80
17357868--17357915	24	2.0	24	95	0	87	33	14	12	39	1.84
17358979--17359067	12	7.8	12	67	14	53	29	23	8	38	1.85
17358974--17359068	22	4.2	22	81	5	100	28	23	8	40	1.83
17364074--17364162	30	3.0	29	80	9	90	42	7	15	33	1.76
17372906--17373063	64	2.5	64	86	2	201	29	24	16	29	1.97
17385477--17385634	64	2.5	64	86	6	205	30	25	15	28	1.96
17389236--17389365	47	3.0	42	83	10	124	40	7	18	33	1.79
17389255--17389379	47	2.8	45	86	7	173	40	8	20	31	1.81
17393107--17393228	59	2.1	59	84	0	154	29	22	18	29	1.97
17395160--17395219	24	2.5	24	83	0	84	31	36	18	13	1.89
17397155--17397201	17	2.7	17	96	3	85	38	6	2	53	1.39
17402437--17402647	67	3.2	66	82	4	246	27	20	11	40	1.87
17402465--17402582	36	3.4	36	66	11	93	25	22	11	40	1.88
17402670--17403007	130	2.6	131	77	6	344	27	30	16	25	1.97
17403326--17403376	24	2.1	24	85	0	66	31	37	23	7	1.83
17403760--17403797	19	2.0	20	84	5	51	84	7	5	2	0.86
17405469--17405524	23	2.4	23	96	0	103	37	0	3	58	1.15
17405481--17405530	23	2.2	23	88	0	73	48	0	4	48	1.20
17408533--17408915	54	7.1	53	79	6	324	31	22	14	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17410740--17410864	47	2.8	45	87	6	180	31	23	8	37	1.84
17410965--17411099	59	2.3	58	83	2	180	28	25	17	28	1.97
17416886--17416996	23	4.8	23	76	4	89	18	24	24	32	1.97
17416979--17417032	24	2.3	23	84	9	65	16	20	24	38	1.92
17423772--17423843	23	3.1	23	74	4	72	18	18	27	36	1.94
17423764--17423830	24	2.9	23	77	2	71	19	20	26	32	1.97
17423764--17423911	47	3.1	45	78	13	111	19	20	24	35	1.96
17423810--17423916	24	4.5	24	80	12	105	17	21	25	35	1.95
17423834--17423916	24	3.4	25	85	11	111	18	20	25	36	1.95
17426932--17427003	21	3.5	21	88	3	103	29	25	22	23	1.99

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89