genome.fa.s9462.2.7.7.80.10.50.1000.25.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   90   91   

This is table  25  of  91  ( 10815 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)
5076287--5076385	36	2.8	36	87	6	155	28	11	19	41	1.85
5077751--5077793	21	2.0	22	86	9	61	44	39	4	11	1.62
5088435--5088482	6	7.8	6	79	4	51	72	0	10	16	1.10
5103492--5103541	23	2.2	23	88	0	73	16	28	18	38	1.91
5103827--5103895	23	3.0	23	76	4	68	31	26	24	17	1.97
5113356--5113389	2	17.0	2	100	0	68	50	0	0	50	1.00
5113807--5113862	2	28.0	2	100	0	112	50	0	0	50	1.00
5113870--5113944	12	6.3	12	71	13	57	60	2	8	29	1.39
5115123--5115184	3	20.3	3	90	3	52	53	0	0	46	1.00
5115445--5115829	116	3.3	116	92	1	610	28	21	22	28	1.99
5115666--5115769	45	2.3	45	86	3	136	27	21	23	27	1.99
5115611--5116039	193	2.2	193	91	0	696	31	19	21	27	1.98
5115713--5115920	74	2.8	73	87	2	283	30	18	21	28	1.97
5115860--5115962	45	2.2	45	81	3	125	28	19	23	29	1.98
5115988--5116081	45	2.1	45	83	0	116	29	19	22	28	1.98
5115804--5116900	116	9.3	116	87	2	1397	28	20	21	29	1.98
5116329--5116432	45	2.3	45	85	6	129	27	20	23	28	1.99
5115804--5116895	352	3.1	350	89	2	1634	29	20	21	29	1.98
5116584--5116646	20	3.0	22	68	17	60	17	23	20	38	1.93
5116691--5116784	45	2.1	45	86	4	127	28	21	20	29	1.98
5117591--5117673	22	3.9	22	87	3	107	31	15	16	36	1.91
5118044--5118147	55	1.9	55	82	4	129	31	19	13	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5119025--5119197	75	2.3	75	86	2	240	29	23	15	31	1.95
5119795--5119884	46	2.0	46	91	4	146	33	22	17	26	1.96
5121611--5121640	9	3.3	9	90	0	51	10	26	0	63	1.26
5121602--5121640	18	2.2	18	90	0	60	10	23	0	66	1.22
5124130--5124159	8	3.8	8	100	0	60	66	10	10	13	1.44
5124130--5124170	16	2.7	15	88	7	57	65	9	12	12	1.46
5124202--5124254	21	2.6	21	79	8	56	62	5	13	18	1.50
5126610--5126652	18	2.2	20	80	20	63	67	0	9	23	1.19
5126618--5126652	18	1.9	18	100	0	70	71	0	11	17	1.14
5127481--5127505	5	5.0	5	100	0	50	80	0	0	20	0.72
5127649--5127717	23	3.0	23	75	14	79	63	2	4	28	1.28
5127643--5127732	23	3.9	21	75	16	65	63	3	4	28	1.30
5127752--5127793	22	2.0	21	85	4	57	64	2	4	28	1.26
5128919--5128971	3	17.3	3	84	3	61	56	0	1	41	1.10
5128914--5128966	19	2.9	18	88	5	72	52	0	1	45	1.11
5129806--5129871	28	2.4	28	84	5	80	31	19	7	40	1.80
5129820--5129878	28	2.1	28	83	0	73	35	20	5	38	1.75
5130134--5130236	36	2.9	36	89	0	152	44	16	13	25	1.84
5132683--5132742	25	2.5	24	79	15	61	13	16	16	53	1.73
5137226--5137292	25	2.8	25	75	4	66	40	0	22	37	1.54
5153113--5153165	24	2.2	24	100	0	106	39	13	22	24	1.90
5154003--5154061	15	4.1	14	81	14	66	50	3	1	44	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5153997--5154070	7	10.3	7	78	5	58	45	2	1	50	1.24
5154003--5154070	14	4.7	15	81	13	72	48	2	1	47	1.26
5153997--5154070	22	3.4	22	76	9	71	45	2	1	50	1.24
5155189--5155216	10	2.8	10	100	0	56	60	0	7	32	1.24
5156789--5156823	14	2.5	14	90	0	52	28	25	17	28	1.97
5166595--5166707	47	2.4	48	91	5	187	30	17	19	32	1.95
5168848--5168908	22	2.5	24	82	15	65	72	6	4	16	1.24
5176044--5176154	46	2.4	46	92	0	177	20	11	27	40	1.87
5181238--5181293	22	2.5	22	94	0	103	16	23	44	16	1.86
5183438--5183501	22	2.8	23	85	4	76	23	21	31	23	1.99
5183436--5183501	23	2.9	22	84	6	78	22	22	30	24	1.99
5192284--5192337	26	2.0	26	89	7	81	42	5	7	44	1.55
5203286--5203334	19	2.7	17	84	9	53	26	18	30	24	1.98
5203303--5203470	64	2.6	65	81	3	189	27	15	24	32	1.95
5206017--5206096	24	3.5	23	77	14	85	28	21	26	23	1.99
5206016--5206116	44	2.3	44	79	8	107	26	19	27	25	1.99
5212068--5212107	21	1.9	21	94	0	71	22	15	30	32	1.94
5212535--5212580	20	2.3	19	85	14	58	26	15	8	50	1.73
5213945--5213984	21	1.9	21	94	0	71	35	10	20	35	1.86
5222154--5222223	26	2.7	25	91	6	113	31	1	15	51	1.53
5222764--5222809	20	2.3	19	85	14	58	26	15	8	50	1.73
5223672--5223715	14	3.2	14	75	18	56	40	2	0	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5243503--5243541	13	3.0	13	88	7	53	43	7	5	43	1.55
5244014--5244110	44	2.2	44	88	0	140	28	17	20	32	1.96
5251269--5251335	20	3.2	20	78	6	71	29	20	8	40	1.83
5251859--5251953	2	48.5	2	73	12	63	42	8	1	48	1.40
5253468--5253549	39	2.1	39	80	8	96	25	2	15	56	1.52
5253889--5253913	11	2.3	11	100	0	50	60	0	0	40	0.97
5256490--5256536	20	2.3	20	81	0	67	27	6	4	61	1.39
5257645--5257679	2	17.5	2	100	0	70	48	0	0	51	1.00
5257853--5257897	23	2.0	23	91	8	74	24	11	15	48	1.77
5258712--5259285	112	5.1	112	93	0	909	45	13	14	25	1.82
5258712--5259285	223	2.6	224	90	0	909	45	13	14	25	1.82
5259158--5259975	182	4.5	182	92	0	1339	42	12	16	27	1.84
5259158--5259949	364	2.2	364	98	0	1539	43	12	16	28	1.84
5260593--5260640	23	2.1	23	88	0	69	39	18	6	35	1.76
5261750--5261804	15	3.8	15	78	9	69	27	7	0	65	1.19
5261721--5261806	28	3.0	28	93	5	136	27	4	2	65	1.25
5266519--5266564	21	2.2	21	100	0	92	17	10	28	43	1.82
5266331--5266794	251	1.8	251	94	0	831	24	21	21	31	1.98
5267355--5267391	15	2.5	15	100	0	74	40	0	27	32	1.57
5269285--5269315	15	2.1	15	93	0	53	25	0	22	51	1.48
5273602--5273652	22	2.3	22	89	0	75	27	21	23	27	1.99
5277108--5277233	63	2.0	63	100	0	252	22	15	34	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5280481--5280527	21	2.1	21	84	11	58	51	4	21	23	1.65
5280618--5280684	22	3.0	22	82	0	80	26	22	22	28	1.99
5281654--5281683	13	2.3	13	94	0	51	53	20	0	26	1.46
5281678--5281720	18	2.4	18	78	21	54	32	25	11	30	1.91
5281714--5281764	22	2.5	20	84	15	68	37	19	3	39	1.70
5281712--5281771	10	5.8	10	76	7	57	36	23	3	36	1.71
5283579--5283639	30	2.0	30	90	0	95	29	32	4	32	1.79
5283590--5283653	15	4.3	15	74	18	53	28	34	1	35	1.67
5284956--5284999	23	1.9	23	86	9	63	9	18	9	63	1.49
5286887--5286920	17	2.0	17	100	0	68	35	5	11	47	1.65
5289176--5289231	22	2.5	23	83	11	64	76	3	3	16	1.06
5289144--5289226	7	11.3	7	75	14	60	80	2	6	10	0.97
5289144--5289235	17	6.0	15	70	18	57	80	2	6	10	0.98
5290560--5290585	10	2.6	10	100	0	52	92	0	7	0	0.39
5290620--5290801	65	2.6	70	76	13	187	44	8	1	45	1.42
5290665--5290967	33	8.6	35	78	12	257	45	10	2	41	1.51
5290664--5290981	107	3.0	106	82	8	346	45	10	2	41	1.50
5290946--5291008	26	2.5	26	89	2	92	47	6	1	44	1.38
5292597--5292635	14	2.8	13	88	7	51	5	23	0	71	1.05
5295637--5295686	21	2.4	21	100	0	100	18	34	20	28	1.95
5295975--5296049	36	2.1	36	97	0	141	9	16	17	57	1.64
5298123--5298169	22	2.1	22	92	0	76	38	14	25	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5298762--5298883	61	2.0	61	85	0	163	31	27	16	25	1.96
5305632--5305675	22	2.0	22	90	0	70	38	11	20	29	1.87
5305634--5305686	22	2.4	22	83	0	61	37	13	24	24	1.91
5307623--5307681	30	2.0	30	83	12	77	33	18	6	40	1.77
5308416--5308490	31	2.5	31	93	2	125	33	8	16	42	1.77
5308540--5308581	21	2.0	21	95	0	75	23	21	28	26	1.99
5308610--5308649	20	1.9	21	85	10	55	37	37	10	15	1.80
5310908--5310954	22	2.1	22	96	0	85	55	8	2	34	1.42
5311114--5311204	31	3.0	31	96	3	168	32	6	18	41	1.76
5311388--5311429	21	2.0	21	95	0	75	23	21	28	26	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   90   91